Citrus Sinensis ID: 047029

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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-----
Protein Sequence
MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLTLIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEGMQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEFMKSEDADVALNGLVDFLLRKKEQTMKCNEEENESLKNEEDCT
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccEEEEEEcccccccHHHHHHHHHHHcccccccccEEEEEcccccccEEEEEccccEEEEEEccEEEEEEEEEEcccccccccccccccccccEEEEEEEEEcccHHHHHHHHHHHHHHHHHHHHccccEEEEcccccccccccccccccccccccHHHHHHHHHHHHHHHHcHHHHHHHcccccccEEEEccccccHHHHHHHHHcccccEEEEEccccccccHHHHHHHHHccccEEEEcccccccccccccccccccccccccccccHHHHcccccccccccEEEEEEEccccccccccccccccccEEEEEccccHHHHHHHHHHHccccccccHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHcccccEEEEEEEccccccHHHHHHHHHHHHHHHccHHccEEEEccccccccEEEEEccccEEEEEEccEEEEEEEEEEccccccccccccccccccccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEcccccccccccccccHHHHcccHHHHHHHHHHHHHHHHcHHHHHHHHHHHHccEEEEccccccHHHHHHHHHHHccccEEEEEccEccccHHHHHHHHcccccEEEEEEEcccEEEcccccccccccccccEEEEHHHHHHHcccHccccccEEEEEEcccHHcccHHHccccccccEEEEccccHHHHHHHHHHHcccccccHHHHHHHHHHHcccccHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEglfgkfsdqLTLIIEqsegfsvnEIYQAAELYLSTRITPSIQqlrvsqaprekslSVTINEGQKVVDTFEGMQLTWELVTTenqktsldydsglyasETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVIKLYSLCAAdainldhpstfdtlamdpvLKQALIDDLDRFVKRREFYSRVGKAWKRgyllygppgtgkSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIdcsielenrqcgggydennsQVTLSGLLNFVdglwsscgderiIVFTTNykerldpallrpgrmdmhihmsyltpggFKILAFNYLKIKSHSMFDEIEELIKEvevtpaeefmksedaDVALNGLVDFLLRKKEQTMKCNeeeneslkneedct
Flexible Loop (DISEMBL)
MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLTLIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRvsqaprekslsvtinegqkvvdtFEGMQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREfysrvgkawkrgyllygppgtGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVstgnrsilviEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFttnykerldpalLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEfmksedadvALNGLVDFLLRKKeqtmkcneeeneslkneedct
Low Complexity Region (SEG)
MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLTLIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEGMQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMElaslrsnsdlrrllVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEFMKSEDADVALNGLVDFLLRKKEQTMKCneeeneslkneeDCT
Disordered region (IsUnstruct)
*******LSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLTLIIEQSEGFSVNEIYQAAELYLSTRITPSIQQL************VTINEGQKVVDTFEGMQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEFMKSEDADVALNGLVDFLLR***********************
Disordered Region (DISOPRED)
****SSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLTLIIEQSEGFSVNEIYQAAELYLSTRITP*****************VTINEGQKVVDTFEGMQLTWEL********************TAHKSFHLSFSKLFKDKVLNKYLPYVAERSKA*********************DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCS*******************TLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEFMKSEDADVALNGLVDFL*************************
Disordered Region (DISEMBL)
********STYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLTLIIEQSEGFSVNEIYQAAELYLSTRITPSIQ**************VTINEGQKVVDTFEGMQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEFMKSEDADVALNGLVDFLLRKKEQTM*****************
Disordered Region (DISPRO)
*PSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLTLIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEGMQLTWELVTTENQKTSLDYDS***ASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENR********NNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEFMKSEDADVALNGLVDFLLRKKEQTMK****************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLTLIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEGMQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEFMKSEDADVALNGLVDFLxxxxxxxxxxxxxxxxxxxxxEDCT
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	455	2.2.26 [Sep-21-2011]
Q9P6Q3	449	Probable mitochondrial ch	yes	no	0.468	0.474	0.345	8e-31
P32839	456	Mitochondrial chaperone B	yes	no	0.463	0.462	0.341	5e-28
Q54DY9	458	Probable mitochondrial ch	no	no	0.415	0.412	0.359	2e-27
Q7ZV60	420	Mitochondrial chaperone B	yes	no	0.342	0.371	0.412	2e-25
Q7ZTL7	419	Mitochondrial chaperone B	N/A	no	0.432	0.470	0.334	4e-24
Q9CZP5	418	Mitochondrial chaperone B	yes	no	0.505	0.550	0.295	1e-22
Q54HY8	421	Probable mitochondrial ch	no	no	0.349	0.377	0.426	1e-21
Q9Y276	419	Mitochondrial chaperone B	yes	no	0.424	0.460	0.338	2e-21
Q5E9H5	419	Mitochondrial chaperone B	yes	no	0.426	0.463	0.311	1e-20
Q7URM7	728	ATP-dependent zinc metall	yes	no	0.404	0.252	0.330	3e-16

>sp|Q9P6Q3|BCS1_SCHPO Probable mitochondrial chaperone bcs1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC644.07 PE=2 SV=1

 Score =  135 bits (339), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 77/223 (34%), Positives = 128/223 (57%), Gaps = 10/223 (4%)

Query: 184 KKVIKLYSLCAADAINLDHPST---FDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAW 240
           K    +Y+  A +     HP +     ++ ++  +K+ + DD+  F++  ++Y   G  +
Sbjct: 182 KNKTTIYTAWATEWKPFGHPRSKRMLSSVVLESNVKKMITDDVHDFLRNSQWYDTRGIPY 241

Query: 241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSD-LRRLLVSTGNRSILVIE 299
           +RGYLLYGPPG+GK+S + A+A  L +DI  + LA      D L  LL +   ++++++E
Sbjct: 242 RRGYLLYGPPGSGKTSFLYALAGELDYDICVLNLAEKGLTDDRLNHLLSNVPPKAVVLLE 301

Query: 300 DIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPAL 359
           D+D + +   R    G+  N   VT SGLLN +DG+ SS  DERII  TTN+ E+LDPAL
Sbjct: 302 DVDSAFQGRERSGEVGFHAN---VTFSGLLNALDGVTSS--DERIIFMTTNHPEKLDPAL 356

Query: 360 LRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI 402
           +RPGR+D+  ++   TP   + + F      S  M D++ +++
Sbjct: 357 VRPGRVDVKAYLGNATPEQVREM-FTRFYGHSPEMADDLSDIV 398

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|P32839|BCS1_YEAST Mitochondrial chaperone BCS1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=BCS1 PE=1 SV=2

 Score =  125 bits (315), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 79/231 (34%), Positives = 130/231 (56%), Gaps = 20/231 (8%)

Query: 155 LSFSKLFKDK-----VLNKYLPYVAERSKAIKETKKVIKLYSLCAADAINLDHPST---F 206
           ++ + L++DK     +LN+       +  A+K T+    +Y+    +      P      
Sbjct: 172 VTLTTLYRDKHLFDDILNE------AKDIALKTTEGKTVIYTSFGPEWRKFGQPKAKRML 225

Query: 207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK 266
            ++ +D  +K+ ++DD+  F+K  ++YS  G  ++RGYLLYGPPG+GK+S I A+A  L 
Sbjct: 226 PSVILDSGIKEGILDDVYDFMKNGKWYSDRGIPYRRGYLLYGPPGSGKTSFIQALAGELD 285

Query: 267 FDIYDMELASLRSNSD-LRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTL 325
           ++I  + L+      D L  L+ +   RSIL++EDID +    N++   G    +S VT 
Sbjct: 286 YNICILNLSENNLTDDRLNHLMNNMPERSILLLEDIDAAF---NKRSQTGEQGFHSSVTF 342

Query: 326 SGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTP 376
           SGLLN +DG+ SS  +E I   TTN+ E+LD A++RPGR+D  + +   TP
Sbjct: 343 SGLLNALDGVTSS--EETITFMTTNHPEKLDAAIMRPGRIDYKVFVGNATP 391

Essential for the expression of the Rieske iron-sulfur protein.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q54DY9|BCS1B_DICDI Probable mitochondrial chaperone BCS1-B OS=Dictyostelium discoideum GN=bcsl1b PE=3 SV=1

 Score =  124 bits (310), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 79/220 (35%), Positives = 118/220 (53%), Gaps = 31/220 (14%)

Query: 181 KETKKVIKLYSLCAADAINLDHPS---TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVG 237
           KE  K + +Y+    D     HP       ++ +D    + +I D+ +F+   ++Y+  G
Sbjct: 179 KEEGKTL-IYTSMGTDWRRFGHPRRKRPISSVILDKGKSELIIQDVKKFLNNSDWYNDRG 237

Query: 238 KAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR-SNSDLRRLLVSTGNRSIL 296
             ++RGYLLYGPPGTGKSS I A+A  L+  I  + LA    S++ L +LL +   RSI+
Sbjct: 238 IPYRRGYLLYGPPGTGKSSFITALAGELQLSICILNLAGKSVSDTSLNQLLATAPQRSII 297

Query: 297 VIEDIDCSIELENR--------------QCGG----GYDEN------NSQVTLSGLLNFV 332
           ++EDID +I+  N                 GG    GY  N       S +T SGLLN +
Sbjct: 298 LLEDIDSAIQTGNHDLSAKSNSANAPSISSGGLQYQGYYGNPSVSSGGSALTFSGLLNAL 357

Query: 333 DGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMS 372
           DG+ +S G  RI+  TTN+ E+LD  L+RPGR+D+ I + 
Sbjct: 358 DGVAASEG--RILFMTTNHLEKLDKVLIRPGRVDLQIEIG 395

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

Dictyostelium discoideum (taxid: 44689)

>sp|Q7ZV60|BCS1_DANRE Mitochondrial chaperone BCS1 OS=Danio rerio GN=bcs1l PE=2 SV=2

 Score =  117 bits (293), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 68/165 (41%), Positives = 104/165 (63%), Gaps = 9/165 (5%)

Query: 208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF 267
           ++ ++  + + ++DD+  F+   ++Y+  G  ++RGYLLYGPPG GKSS I A+A  L +
Sbjct: 190 SVVLESGVAERIVDDVKEFIGNPKWYTDRGIPYRRGYLLYGPPGCGKSSFITALAGELGY 249

Query: 268 DIYDMELASLRSNSD--LRRLLVSTGNRSILVIEDIDCSI---ELENRQCGGGYDENNSQ 322
            I  M L+  RS SD  L  LL     +SI+++ED+D +    EL   +    Y +   +
Sbjct: 250 SICLMSLSD-RSLSDDRLNHLLSVAPQQSIILLEDVDAAFVSRELLPTENPLAY-QGMGR 307

Query: 323 VTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDM 367
           +T SGLLN +DG+ SS  + RI+  TTN+ ERLDPAL+RPGR+D+
Sbjct: 308 LTFSGLLNALDGVASS--EARIVFMTTNFIERLDPALVRPGRVDL 350

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

Danio rerio (taxid: 7955)

>sp|Q7ZTL7|BCS1_XENLA Mitochondrial chaperone BCS1 OS=Xenopus laevis GN=bcs1l PE=2 SV=1

 Score =  113 bits (282), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 69/206 (33%), Positives = 116/206 (56%), Gaps = 9/206 (4%)

Query: 176 RSKAIKETKKVIKLYSLCAADAINLDHPS---TFDTLAMDPVLKQALIDDLDRFVKRREF 232
           R  A+K+      +Y+   A+      P       ++ ++  + + ++ D+  F++  ++
Sbjct: 155 RELALKQQVGKTVMYNAVGAEWRQFGFPRRRRPLSSVVLEQGISEKIVQDVKGFIENPKW 214

Query: 233 YSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDI-YDMELASLRSNSDLRRLLVSTG 291
           YS  G  ++RGYLLYGPPG GKSS I A+A  L++ I       S  S+  L  LL    
Sbjct: 215 YSDRGIPYRRGYLLYGPPGCGKSSFITALAGELEYSICLMSLSDSSLSDDRLNHLLSVAP 274

Query: 292 NRSILVIEDIDCSIELE--NRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT 349
            +SI+++ED+D +      N+Q    Y +   ++T SGLLN +DG+ S+  + RI+  TT
Sbjct: 275 QQSIILLEDVDAAFVSRDLNKQNPTAY-QGMGRLTFSGLLNALDGVAST--EARIVFMTT 331

Query: 350 NYKERLDPALLRPGRMDMHIHMSYLT 375
           N+ +RLDPAL+RPGR+D+  ++ + T
Sbjct: 332 NHIDRLDPALIRPGRVDVKQYVGHCT 357

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

Xenopus laevis (taxid: 8355)

>sp|Q9CZP5|BCS1_MOUSE Mitochondrial chaperone BCS1 OS=Mus musculus GN=Bcs1l PE=1 SV=1

 Score =  108 bits (269), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 73/247 (29%), Positives = 131/247 (53%), Gaps = 17/247 (6%)

Query: 176 RSKAIKETKKVIKLYSLCAADAINLDHPS---TFDTLAMDPVLKQALIDDLDRFVKRREF 232
           R+ A+++ +    +Y+   ++     +P      D++ +   L   ++ D+  F+   ++
Sbjct: 155 RALALQQEEGKTVMYTAVGSEWRTFGYPRRRRPLDSVVLQQGLADRIVKDIREFIDNPKW 214

Query: 233 YSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDI-YDMELASLRSNSDLRRLLVSTG 291
           Y   G  ++RGYLLYGPPG GKSS I A+A  L+  I       S  S+  L  LL    
Sbjct: 215 YIDRGIPYRRGYLLYGPPGCGKSSFITALAGELEHSICLLSLTDSSLSDDRLNHLLSVAP 274

Query: 292 NRSILVIEDIDCS-----IELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIV 346
            +S++++ED+D +     + +EN     G      ++T SGLLN +DG+ S+  + RI+ 
Sbjct: 275 QQSLVLLEDVDAAFLSRDLAVENPIKYQGL----GRLTFSGLLNALDGVAST--EARIVF 328

Query: 347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEV- 405
            TTNY +RLDPAL+RPGR+D+  ++ Y +      +   +   ++ S+ +   E + +  
Sbjct: 329 MTTNYIDRLDPALIRPGRVDLKEYVGYCSHWQLTQMFQRFYPGQAPSLAENFAEHVLKAT 388

Query: 406 -EVTPAE 411
            E++PA+
Sbjct: 389 SEISPAQ 395

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III. Plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex.

Mus musculus (taxid: 10090)

>sp|Q54HY8|BCS1A_DICDI Probable mitochondrial chaperone BCS1-A OS=Dictyostelium discoideum GN=bcs1la PE=3 SV=1

 Score =  104 bits (259), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 70/164 (42%), Positives = 96/164 (58%), Gaps = 5/164 (3%)

Query: 215 LKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL 274
           LK  LI+D+  F+    +Y   G  ++RGYLLYG PG GKSSLI A+A  L  DI  + L
Sbjct: 195 LKSKLIEDIKSFITNESWYRNRGIPYRRGYLLYGEPGNGKSSLINAIAGELNLDICIVSL 254

Query: 275 ASLR-SNSDLRRLLVSTGNRSILVIEDIDCSIE--LENRQCGGGYDENNSQVTLSGLLNF 331
           +S    +  +  LL +   +SIL+IEDID + +   +N         NN+ +T SGLLN 
Sbjct: 255 SSKDIDDKQINHLLNNAPPKSILLIEDIDAAFKSHRDNVDSNNNNSNNNNSLTYSGLLNA 314

Query: 332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLT 375
           +DG+ S  G  RI+  TTN  E LD AL+R GR+D+ I +S  T
Sbjct: 315 LDGVASQEG--RILFMTTNKIELLDSALIREGRIDLKIKVSNAT 356

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

Dictyostelium discoideum (taxid: 44689)

>sp|Q9Y276|BCS1_HUMAN Mitochondrial chaperone BCS1 OS=Homo sapiens GN=BCS1L PE=1 SV=1

 Score =  103 bits (258), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 71/210 (33%), Positives = 115/210 (54%), Gaps = 17/210 (8%)

Query: 176 RSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMDPVLKQALID----DLDRFVKRRE 231
           R  A+++ +    +Y+   ++     +P     L    VL+Q L D    D+  F+   +
Sbjct: 155 RELALQQEEGKTVMYTAVGSEWRPFGYPRRRRPLN-SVVLQQGLADRIVRDVQEFIDNPK 213

Query: 232 FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDI-YDMELASLRSNSDLRRLLVST 290
           +Y+  G  ++RGYLLYGPPG GKSS I A+A  L+  I       S  S+  L  LL   
Sbjct: 214 WYTDRGIPYRRGYLLYGPPGCGKSSFITALAGELEHSICLLSLTDSSLSDDRLNHLLSVA 273

Query: 291 GNRSILVIEDIDCS-----IELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERII 345
             +S++++ED+D +     + +EN     G      ++T SGLLN +DG+ S+  + RI+
Sbjct: 274 PQQSLVLLEDVDAAFLSRDLAVENPVKYQGL----GRLTFSGLLNALDGVAST--EARIV 327

Query: 346 VFTTNYKERLDPALLRPGRMDMHIHMSYLT 375
             TTN+ +RLDPAL+RPGR+D+  ++ Y +
Sbjct: 328 FMTTNHVDRLDPALIRPGRVDLKEYVGYCS 357

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III. Plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex.

Homo sapiens (taxid: 9606)

>sp|Q5E9H5|BCS1_BOVIN Mitochondrial chaperone BCS1 OS=Bos taurus GN=BCS1L PE=2 SV=1

 Score =  101 bits (251), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 65/209 (31%), Positives = 115/209 (55%), Gaps = 15/209 (7%)

Query: 176 RSKAIKETKKVIKLYSLCAADAINLDHPS---TFDTLAMDPVLKQALIDDLDRFVKRREF 232
           R  A+++ +    +Y+   ++     +P      +++ ++  + + ++ D+  F+   ++
Sbjct: 155 RELALQQEEGKTVMYTAVGSEWRPFGYPRRRRPLNSVVLEQGVTERIVRDIREFIDNPKW 214

Query: 233 YSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDI-YDMELASLRSNSDLRRLLVSTG 291
           Y   G  ++RGYLLYGPPG GKSS I A+A  L+  I       S  S+  L  LL    
Sbjct: 215 YIDRGIPYRRGYLLYGPPGCGKSSFITALAGELQHSICLLSLTDSSLSDDRLNHLLSVAP 274

Query: 292 NRSILVIEDIDCS-----IELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIV 346
            +S++++ED+D +     +  EN     G      ++T SGLLN +DG+ S+  + RI+ 
Sbjct: 275 QQSLVLLEDVDAAFLSRDLAAENPIKYQGL----GRLTFSGLLNALDGVAST--EARIVF 328

Query: 347 FTTNYKERLDPALLRPGRMDMHIHMSYLT 375
            TTN+ +RLDPAL+RPGR+DM  ++ + +
Sbjct: 329 MTTNHIDRLDPALIRPGRVDMKEYVGHCS 357

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III. Plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex.

Bos taurus (taxid: 9913)

>sp|Q7URM7|FTSH2_RHOBA ATP-dependent zinc metalloprotease FtsH 2 OS=Rhodopirellula baltica (strain SH1) GN=ftsH2 PE=3 SV=1

 Score = 86.7 bits (213), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 72/218 (33%), Positives = 108/218 (49%), Gaps = 34/218 (15%)

Query: 201 DHPSTFDTLAMDPVLKQAL--IDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLI 258
           D P+TF+ +A    +++A+  + ++  F+K  E Y  +G    +G LL GPPGTGK+ L 
Sbjct: 245 DLPTTFEDVAG---IEEAVDEVREVVDFLKNSEKYQSLGGRIPKGVLLVGPPGTGKTLLA 301

Query: 259 AAMANYLKFDIYDMELASLRSNSDLRRLLVSTG------------NRS--ILVIEDIDCS 304
            A+A       + +      S SD   + V  G            NR+  I+ I+++D  
Sbjct: 302 KAIAGEAGVPFFSL------SGSDFVEMFVGVGAARVRDMFTQAVNRAPCIIFIDELDAL 355

Query: 305 IELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGR 364
            +  +    GG+DE   + TL+ LL  +DG  S+ G   I+V  TN  E LDPALLRPGR
Sbjct: 356 GKSRSGSVVGGHDER--EQTLNALLVEMDGFDSNSG--VIVVAATNRPETLDPALLRPGR 411

Query: 365 MDMHIHMSYLTPGGF-KILAFNYLKIKSHSMFDEIEEL 401
            D H+ +      G  +ILA +   +K     DE  EL
Sbjct: 412 FDRHVLVDRPDVAGREEILAVHVKNVK----LDETVEL 445

Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins.

Rhodopirellula baltica (strain SH1) (taxid: 243090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 4

EC: .

EC: -

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	455
359473565	516	PREDICTED: ATP-dependent zinc metallopro	0.982	0.866	0.659	1e-173
255547776	503	ATP binding protein, putative [Ricinus c	0.951	0.860	0.679	1e-173
147766990	492	hypothetical protein VITISV_030608 [Viti	0.980	0.906	0.658	1e-172
224102307	461	predicted protein [Populus trichocarpa]	0.980	0.967	0.66	1e-171
359473572	543	PREDICTED: peroxisomal biogenesis factor	0.960	0.804	0.619	1e-162
297738373	623	unnamed protein product [Vitis vinifera]	0.914	0.667	0.629	1e-159
297738388	479	unnamed protein product [Vitis vinifera]	0.905	0.860	0.615	1e-155
359473721	486	PREDICTED: mitochondrial chaperone BCS1-	0.931	0.872	0.617	1e-155
359473719	482	PREDICTED: mitochondrial chaperone BCS1-	0.931	0.879	0.621	1e-155
147782591	513	hypothetical protein VITISV_031444 [Viti	0.931	0.826	0.619	1e-154

>gi|359473565|ref|XP_002265580.2| PREDICTED: ATP-dependent zinc metalloprotease FTSH, chloroplastic [Vitis vinifera]

 Score =  615 bits (1585), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 304/461 (65%), Positives = 369/461 (80%), Gaps = 14/461 (3%)

Query: 1   MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
           MPST+SVLSTYTTFAASAMLVRT+++EV+T+ NQ IPQ+L++ + SKL GL G  S ++ 
Sbjct: 7   MPSTASVLSTYTTFAASAMLVRTVVSEVETMANQLIPQQLREKIVSKLGGLLGSHSSEMV 66

Query: 61  LIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEG 120
           L+I++  G SVN+IYQA+ELYL T+ITPS+ +L VS+  REK+LSVT+++G+ VVD FEG
Sbjct: 67  LVIQEFNGLSVNQIYQASELYLRTKITPSVGRLNVSKGLREKNLSVTVSKGEMVVDVFEG 126

Query: 121 MQLTWELVTTENQKTSLDYDSGLYASETA-HKSFHLSFSKLFKDKVLNKYLPYVAERSKA 179
           ++L W+L+  E QK S DYDSG  A+E +  +S  L F K +K+ VL+ YLPYV ERS+A
Sbjct: 127 IELRWQLICAETQKPSFDYDSGSMATEKSEQRSIELIFHKKYKEVVLSTYLPYVIERSRA 186

Query: 180 IKETKKVIKLYSLC--------AADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRRE 231
           IKE  KV+KL SL            +INL HP TFDTLAMDP LK+ LI DLDRFV+RRE
Sbjct: 187 IKEENKVVKLCSLGNFSEDYDGPWGSINLSHPCTFDTLAMDPTLKKELIADLDRFVRRRE 246

Query: 232 FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTG 291
           FY +VGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF+IYD+EL SL +NSDLRRLLVST 
Sbjct: 247 FYQKVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFNIYDLELTSLWNNSDLRRLLVSTA 306

Query: 292 NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY 351
           NRSILVIEDIDCS+EL+NRQ  G  +  +SQ+TLSGLLNF+DGLWSSCGDERIIVFTTN+
Sbjct: 307 NRSILVIEDIDCSVELQNRQ-NGSDNNTDSQLTLSGLLNFIDGLWSSCGDERIIVFTTNH 365

Query: 352 KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTP-- 409
           KERLDPALLRPGRMDMHIHMSY TP GFKILA NYL I +H +F +IE L+ EVEVTP  
Sbjct: 366 KERLDPALLRPGRMDMHIHMSYCTPSGFKILAANYLNINTHPLFTKIERLMTEVEVTPAE 425

Query: 410 -AEEFMKSEDADVALNGLVDFLLRKKEQTMKCNEEENESLK 449
            AEE +K E+ DVAL G++ FL RKK Q ++ +E+ NE +K
Sbjct: 426 IAEELLKCEEVDVALEGIIKFLERKKMQ-VEHDEKSNEGVK 465

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547776|ref|XP_002514945.1| ATP binding protein, putative [Ricinus communis] gi|223545996|gb|EEF47499.1| ATP binding protein, putative [Ricinus communis]

 Score =  612 bits (1579), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 307/452 (67%), Positives = 359/452 (79%), Gaps = 19/452 (4%)

Query: 1   MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
           +PST+SV+STYT FAAS+MLVRT+LNEVQT+T Q IPQKLQD + + L  LF   S +LT
Sbjct: 10  IPSTTSVISTYTAFAASSMLVRTVLNEVQTMTAQLIPQKLQDKIMASLGSLFRLNSCKLT 69

Query: 61  LIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEG 120
           LII++  GF++NEIYQA++ YLSTRITPS+ QL+VS+APREK+ +VTIN+GQ++ D FEG
Sbjct: 70  LIIDEYNGFTINEIYQASQAYLSTRITPSVDQLKVSKAPREKNFTVTINKGQRITDEFEG 129

Query: 121 MQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAI 180
           +Q+ WE  +TE Q  + DY      SE   K F L F+K  KD VLN YLPYV ERSKA+
Sbjct: 130 IQVAWEFSSTETQTAASDYSDSTEKSE--RKLFLLCFNKEHKDAVLNVYLPYVLERSKAL 187

Query: 181 KETKKVIKLYSLCAAD-------AINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFY 233
           KE  K IKLYSL   +       +INLDHPSTFDT+AMDP LKQ ++DDLDRFV RREFY
Sbjct: 188 KEENKAIKLYSLFGGEYYEGPWGSINLDHPSTFDTIAMDPRLKQEVMDDLDRFVIRREFY 247

Query: 234 SRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNR 293
            RVG+ WKRGYLLYGPPGTGKSSLIAAMANYLKF+IYD+EL S+ SNS+LRRLL STGNR
Sbjct: 248 RRVGRPWKRGYLLYGPPGTGKSSLIAAMANYLKFNIYDLELTSISSNSELRRLLTSTGNR 307

Query: 294 SILVIEDIDCSIELENRQCGGGYDENN---SQVTLSGLLNFVDGLWSSCGDERIIVFTTN 350
           SILVIEDIDCSI+L++RQ G    ENN   SQ+TLSGLLNF+DGLWSSCGDE+IIVFTTN
Sbjct: 308 SILVIEDIDCSIKLQDRQNG----ENNPGDSQLTLSGLLNFIDGLWSSCGDEKIIVFTTN 363

Query: 351 YKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTP- 409
           YK++LDPALLRPGRMDMHIHMSY T  GFKILAFNYLKIK+H +F EIE+LI+EVEVTP 
Sbjct: 364 YKDKLDPALLRPGRMDMHIHMSYCTTSGFKILAFNYLKIKTHCLFTEIEKLIEEVEVTPA 423

Query: 410 --AEEFMKSEDADVALNGLVDFLLRKKEQTMK 439
             AEE MK  D D+ L GL  FL  KKE   K
Sbjct: 424 EVAEELMKGGDVDLVLKGLQGFLQGKKEMKRK 455

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147766990|emb|CAN69873.1| hypothetical protein VITISV_030608 [Vitis vinifera]

 Score =  612 bits (1577), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 304/462 (65%), Positives = 368/462 (79%), Gaps = 16/462 (3%)

Query: 1   MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
           MPST+ VLSTYTTFAASAMLVRT+++EV+T+ NQ IPQ+L++ + SKL GL G  S ++ 
Sbjct: 1   MPSTAXVLSTYTTFAASAMLVRTVVSEVETMANQLIPQQLREKIVSKLGGLLGSHSSEMV 60

Query: 61  LIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEG 120
           L+I++  G SVN+IYQA+ELYL T+ITPS+ +L VS+  REK+LSVT+++G+ VVD FEG
Sbjct: 61  LVIQEFNGLSVNQIYQASELYLRTKITPSVGRLNVSKGLREKNLSVTVSKGEMVVDVFEG 120

Query: 121 MQLTWELVTTENQKTSLDYDSGLYASETA-HKSFHLSFSKLFKDKVLNKYLPYVAERSKA 179
           ++L W+L+  E QK S DYDSG  A+E +  +S  L F K +K+ VL+ YLPYV ERS+A
Sbjct: 121 IELRWQLICAETQKXSFDYDSGSMATEKSEQRSIELIFHKKYKEVVLSTYLPYVIERSRA 180

Query: 180 IKETKKVIKLYSLC--------AADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRRE 231
           IKE  KV+KL SL            +INL HP TFDTLAMDP LK+ LI DLDRFV+RRE
Sbjct: 181 IKEENKVVKLCSLGNFSEDYDGPWGSINLSHPCTFDTLAMDPTLKKELIADLDRFVRRRE 240

Query: 232 FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTG 291
           FY +VGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF+IYD+EL SL +NSDLRRLLVST 
Sbjct: 241 FYQKVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFNIYDLELTSLWNNSDLRRLLVSTA 300

Query: 292 NRSILVIEDIDCSIELENRQCGGGYDEN-NSQVTLSGLLNFVDGLWSSCGDERIIVFTTN 350
           NRSILVIEDIDCS+EL+NRQ   G D N +SQ+TLSGLLNF+DGLWSSCGDERIIVFT N
Sbjct: 301 NRSILVIEDIDCSVELQNRQ--NGSDNNTDSQLTLSGLLNFIDGLWSSCGDERIIVFTXN 358

Query: 351 YKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTP- 409
           +KERLDPALLRPGRMDMHIHMSY TP GFKILA NYL I +H +F +IE L+ EVEVTP 
Sbjct: 359 HKERLDPALLRPGRMDMHIHMSYCTPSGFKILAANYLNINTHPLFTKIERLMTEVEVTPA 418

Query: 410 --AEEFMKSEDADVALNGLVDFLLRKKEQTMKCNEEENESLK 449
             AEE +K E+ DVAL G++ FL RKK Q ++ +E+ NE +K
Sbjct: 419 EIAEELLKCEEVDVALEGIIKFLERKKMQ-VEHDEKSNEGVK 459

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224102307|ref|XP_002312632.1| predicted protein [Populus trichocarpa] gi|222852452|gb|EEE89999.1| predicted protein [Populus trichocarpa]

 Score =  607 bits (1565), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 297/450 (66%), Positives = 359/450 (79%), Gaps = 4/450 (0%)

Query: 6   SVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLTLIIEQ 65
           SVLSTYT FAASAMLVR++ NEVQ + NQ IPQKLQ+ +SS L  LFG  S +LTLI+ +
Sbjct: 1   SVLSTYTAFAASAMLVRSVFNEVQAVINQLIPQKLQERISSSLGRLFGDDSSRLTLIVNE 60

Query: 66  SEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEGMQLTW 125
             GFS+NE+Y+A+E+YLSTR+T SI QL+V + P  K LSVTIN+GQ+++DTFEG++L W
Sbjct: 61  YNGFSINEMYEASEVYLSTRVTRSIGQLKVFKDPGNKGLSVTINKGQQIIDTFEGIELAW 120

Query: 126 ELVTTENQKTSLDYDSGLYASETA-HKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETK 184
           E  +TE Q+T +D ++   +SE   HK+  LSF K   +KVLN +LPYV ERSKAIK   
Sbjct: 121 EFASTETQQTVVDVETWSQSSEKKEHKTILLSFHKNHNEKVLNTFLPYVLERSKAIKNEN 180

Query: 185 KVIKLYSLCAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGY 244
           +V+KL +L   + ++L HPSTFDTLAMDPVLK+ ++DDLDRFVKR++FY RVGK WKRGY
Sbjct: 181 RVLKLQALGNYEGVSLSHPSTFDTLAMDPVLKKEIMDDLDRFVKRKDFYLRVGKPWKRGY 240

Query: 245 LLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCS 304
           LLYGPPGTGKSSLIAAMANYLKFDIYD+ELASLR NS+LR LL ST NRSI+VIEDIDCS
Sbjct: 241 LLYGPPGTGKSSLIAAMANYLKFDIYDLELASLRGNSNLRSLLTSTTNRSIIVIEDIDCS 300

Query: 305 IELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGR 364
           IEL++RQ G      + Q+TLSGLLNFVDGLWSSCGDERIIVFTTNYK++LDPALLRPGR
Sbjct: 301 IELQDRQHGAYIQGESQQLTLSGLLNFVDGLWSSCGDERIIVFTTNYKDKLDPALLRPGR 360

Query: 365 MDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTP---AEEFMKSEDADV 421
           MDMHIHMSY TP GFKILA NYL +K+HS+F +IEELI EVEVTP   AEE MK+ED D 
Sbjct: 361 MDMHIHMSYCTPCGFKILASNYLNVKNHSLFSQIEELIMEVEVTPAEVAEELMKNEDVDT 420

Query: 422 ALNGLVDFLLRKKEQTMKCNEEENESLKNE 451
           AL G++ FL RKK    K +  E + + +E
Sbjct: 421 ALTGIIGFLERKKGMKRKQSGVEEQKVGDE 450

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473572|ref|XP_002265232.2| PREDICTED: peroxisomal biogenesis factor 6-like [Vitis vinifera]

 Score =  576 bits (1485), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 285/460 (61%), Positives = 356/460 (77%), Gaps = 23/460 (5%)

Query: 1   MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
           MP+TSSV S YTTF ASAMLV+T+L+EVQT+  Q +PQ+LQD + S +  L G  S Q+T
Sbjct: 59  MPATSSVFSAYTTFVASAMLVKTMLHEVQTLAKQLVPQQLQDKILSGIGRLLGDPSSQMT 118

Query: 61  LIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEG 120
           L+I++  G+++N+I++A+++YL T+I+P++ +LRVS++PREK+L VTI+ G+KV+D FEG
Sbjct: 119 LVIDEYNGYTMNQIFEASQIYLQTKISPAVSRLRVSRSPREKNLLVTISNGEKVIDVFEG 178

Query: 121 MQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAI 180
           +QL WE+V++  +    D        +   +S  LSF K   +KVL+ YLPYV ERS++I
Sbjct: 179 IQLKWEMVSSTEKVMGGD--------KGERRSIELSFLKKNMEKVLSSYLPYVVERSESI 230

Query: 181 KETKKVIKLYSLC-----------AADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKR 229
           KE  KV+KLYSL            A  +INLDHPSTF+TLAMD  LK+ LI DLDRFV+R
Sbjct: 231 KEENKVVKLYSLGNFQGGAMVGGGAWGSINLDHPSTFETLAMDLKLKEDLIKDLDRFVRR 290

Query: 230 REFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVS 289
           R+FY RVGKAWKRGYLLYGPPGTGK+SLIAAMANYLKFD+YD+EL SL+ NS LR+LLVS
Sbjct: 291 RKFYKRVGKAWKRGYLLYGPPGTGKTSLIAAMANYLKFDVYDLELTSLQRNSQLRKLLVS 350

Query: 290 TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT 349
           T NRSILVIEDIDCS EL++RQ  G Y++  +Q+TLSGLLNF+DGLWSSCGDERIIVFTT
Sbjct: 351 TKNRSILVIEDIDCSTELQDRQA-GRYNQPTTQLTLSGLLNFIDGLWSSCGDERIIVFTT 409

Query: 350 NYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTP 409
           N+K+R+DPALLRPGRMDMHIHMSY TP GFK LA NYL + +H +F EIE LI EVEVTP
Sbjct: 410 NHKDRIDPALLRPGRMDMHIHMSYCTPYGFKTLASNYLGVSNHRLFTEIERLITEVEVTP 469

Query: 410 ---AEEFMKSEDADVALNGLVDFLLRKKEQTMKCNEEENE 446
              AEE MKSE+ADVAL GL++FL R K    K N E  E
Sbjct: 470 AEIAEELMKSEEADVALEGLIEFLKRAKIAENKSNGEGKE 509

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297738373|emb|CBI27574.3| unnamed protein product [Vitis vinifera]

 Score =  567 bits (1462), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 290/461 (62%), Positives = 348/461 (75%), Gaps = 45/461 (9%)

Query: 1   MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
           MPST+SVLSTYTTFAASAMLVRT+++EV+T+ NQ IPQ+L++ + SKL GL G  S ++ 
Sbjct: 7   MPSTASVLSTYTTFAASAMLVRTVVSEVETMANQLIPQQLREKIVSKLGGLLGSHSSEMV 66

Query: 61  LIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEG 120
           L+I++  G SVN+IYQA+ELYL T+ITPS+ +L VS+  REK+LSVT+++G+ VVD  E 
Sbjct: 67  LVIQEFNGLSVNQIYQASELYLRTKITPSVGRLNVSKGLREKNLSVTVSKGEMVVDKSE- 125

Query: 121 MQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAI 180
                                         +S  L F K +K+ VL+ YLPYV ERS+AI
Sbjct: 126 -----------------------------QRSIELIFHKKYKEVVLSTYLPYVIERSRAI 156

Query: 181 KETKKVIKLYSLC--------AADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREF 232
           KE  KV+KL SL            +INL HP TFDTLAMDP LK+ LI DLDRFV+RREF
Sbjct: 157 KEENKVVKLCSLGNFSEDYDGPWGSINLSHPCTFDTLAMDPTLKKELIADLDRFVRRREF 216

Query: 233 YSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGN 292
           Y +VGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF+IYD+EL SL +NSDLRRLLVST N
Sbjct: 217 YQKVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFNIYDLELTSLWNNSDLRRLLVSTAN 276

Query: 293 RSILVIEDIDCSIELENRQCGGGYDEN-NSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY 351
           RSILVIEDIDCS+EL+NRQ   G D N +SQ+TLSGLLNF+DGLWSSCGDERIIVFTTN+
Sbjct: 277 RSILVIEDIDCSVELQNRQ--NGSDNNTDSQLTLSGLLNFIDGLWSSCGDERIIVFTTNH 334

Query: 352 KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTP-- 409
           KERLDPALLRPGRMDMHIHMSY TP GFKILA NYL I +H +F +IE L+ EVEVTP  
Sbjct: 335 KERLDPALLRPGRMDMHIHMSYCTPSGFKILAANYLNINTHPLFTKIERLMTEVEVTPAE 394

Query: 410 -AEEFMKSEDADVALNGLVDFLLRKKEQTMKCNEEENESLK 449
            AEE +K E+ DVAL G++ FL RKK Q ++ +E+ NE +K
Sbjct: 395 IAEELLKCEEVDVALEGIIKFLERKKMQ-VEHDEKSNEGVK 434

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297738388|emb|CBI27589.3| unnamed protein product [Vitis vinifera]

 Score =  555 bits (1429), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 280/455 (61%), Positives = 341/455 (74%), Gaps = 43/455 (9%)

Query: 1   MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
           MPSTSSVLS YTTFAASAM+V+T+L+EVQT+  Q IPQ LQD + S +  L G  S Q+T
Sbjct: 7   MPSTSSVLSAYTTFAASAMVVKTMLHEVQTMAKQLIPQPLQDKILSGIGRLLGDPSSQMT 66

Query: 61  LIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEG 120
           L+I++  G+++N+I++A+E+YL TRI+P++ +LRVS+APREK L +TIN+G+KV+   +G
Sbjct: 67  LVIDEYNGYAMNQIFEASEIYLQTRISPAVSRLRVSRAPREKDLLITINKGEKVMGGDKG 126

Query: 121 MQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAI 180
                                         +S  LSF K + +KVL+ YLPYV ERS++I
Sbjct: 127 ----------------------------ERRSIELSFLKKYMEKVLSSYLPYVVERSESI 158

Query: 181 KETKKVIKLYSLC-----------AADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKR 229
           KE  KV+KLYSL            A  +INLDHPSTF+TLAMD  LK+ LI DLDRFV+R
Sbjct: 159 KEENKVVKLYSLGNFQGGAMVGGGAWGSINLDHPSTFETLAMDLKLKEDLIKDLDRFVRR 218

Query: 230 REFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVS 289
           R+FY RVGKAWKRGYLLYGPPGTGK+SLIAAMANYLKFD+YD+EL SL+ NS LR+LLVS
Sbjct: 219 RKFYKRVGKAWKRGYLLYGPPGTGKTSLIAAMANYLKFDVYDLELTSLQRNSQLRKLLVS 278

Query: 290 TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT 349
           T NRSILVIEDIDCS EL++RQ  G Y++  +Q+TLSGLLNF+DGLWSSCGDERIIVFTT
Sbjct: 279 TKNRSILVIEDIDCSTELQDRQA-GRYNQPTTQLTLSGLLNFIDGLWSSCGDERIIVFTT 337

Query: 350 NYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTP 409
           N+K+R+DPALLRPGRMDMHIHMSY TP GFK LA NYL + +H +F EIE LI EVEVTP
Sbjct: 338 NHKDRIDPALLRPGRMDMHIHMSYCTPYGFKTLASNYLGVSNHRLFTEIERLITEVEVTP 397

Query: 410 ---AEEFMKSEDADVALNGLVDFLLRKKEQTMKCN 441
              AEE MKSE+ADVAL GL+ FL R K    K N
Sbjct: 398 AEIAEELMKSEEADVALEGLIAFLKRAKSAENKSN 432

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473721|ref|XP_003631352.1| PREDICTED: mitochondrial chaperone BCS1-like isoform 2 [Vitis vinifera]

 Score =  554 bits (1428), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 275/445 (61%), Positives = 344/445 (77%), Gaps = 21/445 (4%)

Query: 1   MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
           MPS ++VLSTY+TFAASAMLVRT+ +E+QT   Q IP K+++ + SK+  L G  S Q+T
Sbjct: 1   MPSATTVLSTYSTFAASAMLVRTVFSEIQTTVTQIIPPKIREKILSKIGSLLGNPSSQIT 60

Query: 61  LIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEG 120
           LI +  +G++VN++Y+A +++L T+I PS+Q+L V +AP  ++L +TI EG+  +D FEG
Sbjct: 61  LIFDDYDGYAVNQMYEACKIFLRTKIPPSVQKLNVFRAPERQNLLITIGEGETAIDIFEG 120

Query: 121 MQLTWELVTTENQKT-SLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKA 179
           +Q+ WE+V T+ +    +DY++         +S  LSF K   D++L+ YLPYV ERSKA
Sbjct: 121 IQVKWEMVCTKKRSIEGVDYEA---------RSMELSFPKKNMDRILSSYLPYVVERSKA 171

Query: 180 IKETKKVIKLYSLCAA-DAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGK 238
             E  KV+KLYS   + ++ NL HPSTF+TLAMD  LKQ LI+DLDRFVKR+++Y RVG+
Sbjct: 172 FIEENKVLKLYSYGGSWESTNLHHPSTFETLAMDSKLKQDLINDLDRFVKRKKYYKRVGR 231

Query: 239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVI 298
           AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYD+EL SLR NS+ RRLLVST N+SILVI
Sbjct: 232 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDLELTSLRCNSEFRRLLVSTTNQSILVI 291

Query: 299 EDIDCSIELENRQCGGGYDENNSQV------TLSGLLNFVDGLWSSCGDERIIVFTTNYK 352
           EDIDCS EL ++Q  GG++ N+SQV      TLSGLLNF+DGLWSSCGDERIIV TTN+K
Sbjct: 292 EDIDCSSELRSQQ-PGGHNPNDSQVKQSTKLTLSGLLNFIDGLWSSCGDERIIVLTTNHK 350

Query: 353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTP--- 409
           ERLDPALLRPGRMDMHIHMSY TP GFK LA NYL I+ H +F EIE+LI EVEVTP   
Sbjct: 351 ERLDPALLRPGRMDMHIHMSYCTPCGFKTLASNYLGIRDHRLFPEIEKLIVEVEVTPAAI 410

Query: 410 AEEFMKSEDADVALNGLVDFLLRKK 434
           AEE MKSE+AD+AL  LV+FL R K
Sbjct: 411 AEELMKSEEADIALGRLVEFLTRVK 435

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473719|ref|XP_003631351.1| PREDICTED: mitochondrial chaperone BCS1-like isoform 1 [Vitis vinifera]

 Score =  554 bits (1427), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 274/441 (62%), Positives = 344/441 (78%), Gaps = 17/441 (3%)

Query: 1   MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
           MPS ++VLSTY+TFAASAMLVRT+ +E+QT   Q IP K+++ + SK+  L G  S Q+T
Sbjct: 1   MPSATTVLSTYSTFAASAMLVRTVFSEIQTTVTQIIPPKIREKILSKIGSLLGNPSSQIT 60

Query: 61  LIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEG 120
           LI +  +G++VN++Y+A +++L T+I PS+Q+L V +AP  ++L +TI EG+  +D FEG
Sbjct: 61  LIFDDYDGYAVNQMYEACKIFLRTKIPPSVQKLNVFRAPERQNLLITIGEGETAIDIFEG 120

Query: 121 MQLTWELVTTENQKT-SLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKA 179
           +Q+ WE+V T+ +    +DY++         +S  LSF K   D++L+ YLPYV ERSKA
Sbjct: 121 IQVKWEMVCTKKRSIEGVDYEA---------RSMELSFPKKNMDRILSSYLPYVVERSKA 171

Query: 180 IKETKKVIKLYSLCAA-DAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGK 238
             E  KV+KLYS   + ++ NL HPSTF+TLAMD  LKQ LI+DLDRFVKR+++Y RVG+
Sbjct: 172 FIEENKVLKLYSYGGSWESTNLHHPSTFETLAMDSKLKQDLINDLDRFVKRKKYYKRVGR 231

Query: 239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVI 298
           AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYD+EL SLR NS+ RRLLVST N+SILVI
Sbjct: 232 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDLELTSLRCNSEFRRLLVSTTNQSILVI 291

Query: 299 EDIDCSIELENRQCGGGYDENNS--QVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLD 356
           EDIDCS EL ++Q  GG++ N+S  Q+TLSGLLNF+DGLWSSCGDERIIV TTN+KERLD
Sbjct: 292 EDIDCSSELRSQQ-PGGHNPNDSQLQLTLSGLLNFIDGLWSSCGDERIIVLTTNHKERLD 350

Query: 357 PALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTP---AEEF 413
           PALLRPGRMDMHIHMSY TP GFK LA NYL I+ H +F EIE+LI EVEVTP   AEE 
Sbjct: 351 PALLRPGRMDMHIHMSYCTPCGFKTLASNYLGIRDHRLFPEIEKLIVEVEVTPAAIAEEL 410

Query: 414 MKSEDADVALNGLVDFLLRKK 434
           MKSE+AD+AL  LV+FL R K
Sbjct: 411 MKSEEADIALGRLVEFLTRVK 431

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147782591|emb|CAN70582.1| hypothetical protein VITISV_031444 [Vitis vinifera]

 Score =  552 bits (1423), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 273/441 (61%), Positives = 345/441 (78%), Gaps = 17/441 (3%)

Query: 1   MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
           MPS ++VLSTY+TFAASAMLVRT+ +E+QT   Q IP K+++ + SK+  L G  S Q+T
Sbjct: 13  MPSATTVLSTYSTFAASAMLVRTVFSEIQTTVTQIIPPKIREKILSKIGSLLGNPSSQIT 72

Query: 61  LIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEG 120
           LI +  +G++VN++Y+A +++L T+I PS+Q+L V +AP  ++L +TI EG+  +D FEG
Sbjct: 73  LIFDDYDGYAVNQMYEACKIFLRTKIPPSVQKLNVFRAPERQNLLITIAEGETAIDIFEG 132

Query: 121 MQLTWELVTTENQKT-SLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKA 179
           +Q+ WE+V T+ +    +DY++         +S  LSF K   D++L+ YLPYV ERSKA
Sbjct: 133 IQVKWEMVCTKKRSIEGVDYEA---------RSMELSFPKKNMDRILSSYLPYVVERSKA 183

Query: 180 IKETKKVIKLYSLCAA-DAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGK 238
             E  KV+KLYS   + ++ NL HPSTF+TLAMD  LKQ LI+DLDRFVKR+++Y RVG+
Sbjct: 184 FIEENKVLKLYSYGGSWESTNLHHPSTFETLAMDSKLKQDLINDLDRFVKRKKYYKRVGR 243

Query: 239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVI 298
           AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYD+EL SLR NS+ RRLLVST N+SILVI
Sbjct: 244 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDLELTSLRCNSEFRRLLVSTTNQSILVI 303

Query: 299 EDIDCSIELENRQCGGGYDENNS--QVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLD 356
           EDIDCS EL+++Q  GG++ N+S  Q+TLSGLLNF+DGLWSSCGDERIIV T+N+KERLD
Sbjct: 304 EDIDCSSELQSQQ-PGGHNPNDSQLQLTLSGLLNFIDGLWSSCGDERIIVLTSNHKERLD 362

Query: 357 PALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTP---AEEF 413
           PALLRPGRMDMHIHMSY TP GFK LA NYL I+ H +F EIE+LI EVEVTP   AEE 
Sbjct: 363 PALLRPGRMDMHIHMSYCTPCGFKTLASNYLGIRDHRLFPEIEKLIVEVEVTPAAIAEEL 422

Query: 414 MKSEDADVALNGLVDFLLRKK 434
           MKSE+AD+AL  LV+FL R K
Sbjct: 423 MKSEEADIALGRLVEFLTRVK 443

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	455
TAIR|locus:2077997	576	BCS1 "cytochrome BC1 synthesis	0.931	0.736	0.493	3.8e-114
TAIR|locus:2078007	451	AT3G50940 [Arabidopsis thalian	0.940	0.949	0.490	4.6e-112
TAIR|locus:1005716649	495	AT2G18193 [Arabidopsis thalian	0.920	0.846	0.486	8.1e-108
TAIR|locus:2175986	505	AT5G17760 [Arabidopsis thalian	0.940	0.847	0.483	1.1e-103
TAIR|locus:2053109	494	AT2G18190 [Arabidopsis thalian	0.936	0.862	0.481	3.7e-103
TAIR|locus:2175956	533	AT5G17740 [Arabidopsis thalian	0.951	0.812	0.447	3.1e-99
TAIR|locus:2175946	470	AT5G17730 [Arabidopsis thalian	0.949	0.919	0.440	1.2e-97
TAIR|locus:2037186	475	AT1G43910 [Arabidopsis thalian	0.859	0.823	0.432	1.5e-83
TAIR|locus:505006520	506	AT4G25835 [Arabidopsis thalian	0.687	0.618	0.371	7.4e-80
TAIR|locus:2175976	392	AT5G17750 [Arabidopsis thalian	0.731	0.849	0.454	1.6e-79

TAIR|locus:2077997 BCS1 "cytochrome BC1 synthesis" [Arabidopsis thaliana (taxid:3702)]

 Score = 1099 (391.9 bits), Expect = 3.8e-114, Sum P(2) = 3.8e-114
 Identities = 226/458 (49%), Positives = 315/458 (68%)

Query:     1 MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
             + +  +VL+T  + AA+AML R+++ +       ++P ++   +S     +FG FS Q+T
Sbjct:    55 LATAKTVLTTAASVAATAMLARSLVQD-------YLPDEVHHYISYGFRSIFGYFSSQMT 107

Query:    61 LIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEG 120
             +IIE+ EGF+ NE+++AAE YL+T+I+PS ++++VS+  +E + +VT+   ++VVDT+ G
Sbjct:   108 IIIEEFEGFAHNEVFEAAEAYLATKISPSNKRIKVSKHEKENNYNVTVERDEEVVDTYNG 167

Query:   121 MQLTWEL----VTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAER 176
             ++  W L    V +++     D +S L  SE   +SF L+F K FKD  L  YLP++ +R
Sbjct:   168 VKFQWILHCRHVESKHFHNPRDLNSTL-RSEV--RSFELNFHKKFKDVALESYLPFMVKR 224

Query:   177 SKAIKETKKVIKLYSLCA-------ADA---INLDHPSTFDTLAMDPVLKQALIDDLDRF 226
             +  +K+ KK +K+++L         +DA   + LDHPSTF TLAMD  +K ++++DLD+F
Sbjct:   225 ATLMKQEKKTLKIFTLSPENMYGNYSDAWTSVTLDHPSTFKTLAMDSDVKTSVMEDLDKF 284

Query:   227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEXXXXXXXXXXXXX 286
             VKRR+FY RVGKAWKRGYLLYGPPGTGKSSLIAAMAN+L FDIYD+E             
Sbjct:   285 VKRRDFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLNFDIYDLELTAVNNNSELRRL 344

Query:   287 XVSTGNRSILVIEDIDCSIELENR-------QCGGGYDENNSQVTLSGLLNFVDGLWSSC 339
              ++T NRSIL++EDIDCS+EL++R       +     D    +VTLSGLLNF+DGLWSSC
Sbjct:   345 LIATANRSILIVEDIDCSLELKDRTSDEPPRESDDIEDPRYKKVTLSGLLNFIDGLWSSC 404

Query:   340 GDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIE 399
             GDERII+FTTNYKE+LD ALLRPGRMDMHIHMSY TP  FK LA NYL+IK H +F +IE
Sbjct:   405 GDERIIIFTTNYKEKLDAALLRPGRMDMHIHMSYCTPSTFKALALNYLEIKEHRLFSKIE 464

Query:   400 ELIKEVEVTPAE---EFMKSEDADVALNGLVDFLLRKK 434
             E I+  EVTPAE   + M+++  D  L GL++FL  KK
Sbjct:   465 EGIEATEVTPAEVAEQLMRNDSVDKVLEGLIEFLKVKK 502

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0009611 "response to wounding" evidence=RCA

GO:0009612 "response to mechanical stimulus" evidence=RCA

GO:0009627 "systemic acquired resistance" evidence=RCA

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

GO:0010200 "response to chitin" evidence=RCA

GO:0052542 "defense response by callose deposition" evidence=RCA

TAIR|locus:2078007 AT3G50940 [Arabidopsis thaliana (taxid:3702)]

 Score = 1106 (394.4 bits), Expect = 4.6e-112, P = 4.6e-112
 Identities = 218/444 (49%), Positives = 312/444 (70%)

Query:     1 MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
             + +  + L+   + AA+A+L R+++ +       ++P ++ + +S      F  FS Q+T
Sbjct:     9 LATAKTALTAVASVAAAAILARSVVQD-------YMPNEVHEYISHGFRRFFSYFSYQMT 61

Query:    61 LIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEG 120
              +IE+  GF  N++++AAE YLST+I+ S ++++V++  ++ + SVT+   ++VVD F+G
Sbjct:    62 AVIEEFGGFEHNQVFEAAEAYLSTKISNSTRRIKVNKLEKQSNYSVTVERDEEVVDIFDG 121

Query:   121 MQLTWELVTTENQKTSLDYDSGLYAS-ETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKA 179
             ++L+W LV     K        L ++ ++  +S+ LSF K FK+ VL  YLP+V E++ +
Sbjct:   122 VKLSWILVCRHVDKKDFRNPRDLNSTLKSEVRSYELSFRKKFKNMVLESYLPFVVEQAAS 181

Query:   180 IKETKKVIKLYSLCAAD----AINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSR 235
             IK+  K +K++++ +      ++ LDHPSTF TLA+DP +K+ L++DLDRFV+R+ FY R
Sbjct:   182 IKQKFKTLKIFTVDSYSVEWTSVTLDHPSTFRTLALDPEVKKNLVEDLDRFVQRKGFYGR 241

Query:   236 VGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEXXXXXXXXXXXXXXVSTGNRSI 295
             VGKAWKRGYLLYGPPGTGKSSLIAA+AN+L FDIYD++              +ST NRSI
Sbjct:   242 VGKAWKRGYLLYGPPGTGKSSLIAAIANHLNFDIYDLDLTSLNNNAELRRLLMSTANRSI 301

Query:   296 LVIEDIDCSIELENRQCGG-GYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER 354
             LV+EDIDCSIEL++R       D  +  VTLSGLLNFVDGLWSSCG+ERIIVFTTNY+E+
Sbjct:   302 LVVEDIDCSIELKDRSTDQENNDPLHKTVTLSGLLNFVDGLWSSCGNERIIVFTTNYREK 361

Query:   355 LDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAE--- 411
             LDPALLRPGRMDMHIHMSY TP  FK+LA NYL+I+ H +F++IEE I+E+EVTPAE   
Sbjct:   362 LDPALLRPGRMDMHIHMSYCTPAAFKVLASNYLEIQDHILFEQIEEFIREIEVTPAEVAE 421

Query:   412 EFMKSEDADVALNGLVDFLLRKKE 435
             + M+S+  D  L GLV+FL  KK+
Sbjct:   422 QLMRSDSVDKVLQGLVEFLKAKKQ 445

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:1005716649 AT2G18193 [Arabidopsis thaliana (taxid:3702)]

 Score = 1066 (380.3 bits), Expect = 8.1e-108, P = 8.1e-108
 Identities = 222/456 (48%), Positives = 304/456 (66%)

Query:     3 STSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLTLI 62
             S SS+ S Y +     ML R++L++       F+P+KL+   SS L+  F   S  LT+I
Sbjct:    10 SPSSLFSAYASLTGFLMLFRSMLHD-------FVPEKLRSYFSSLLDRFFTPKSKYLTVI 62

Query:    63 IEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEGMQ 122
             I+++ G + N+++ AAE+YL ++I P  ++LRV + P++K  +++I  G++++DTFE  +
Sbjct:    63 IDENFGLNRNQVFDAAEMYLRSKIGPETERLRVGKIPKQKHFTISIERGEEILDTFEESE 122

Query:   123 LTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKE 182
             + W  V +EN+K            +   + + L+F K  +DKVLN YL +V   S+ IK 
Sbjct:   123 VKWSYVQSENEK-----------GDKVKRYYELTFEKKLRDKVLNSYLTHVVAESEEIKR 171

Query:   183 TKKVIKLYS--LCAAD-----------AINLDHPSTFDTLAMDPVLKQALIDDLDRFVKR 229
               +V+KLYS  + A+D            INL+HPSTFDTLAMDP  K+ +IDDL+RF+KR
Sbjct:   172 NLRVVKLYSRDVYASDDDDGMAGGNWGCINLEHPSTFDTLAMDPNAKKKIIDDLERFLKR 231

Query:   230 REFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEXXXXXXXXXXXXXXVS 289
             +EFY RVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD++D+E              +S
Sbjct:   232 KEFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIYDNGELKRVLLS 291

Query:   290 TGNRSILVIEDIDCSIELENRQCGGGYDEN-NSQVTLSGLLNFVDGLWSSCGDERIIVFT 348
             T NRSILVIEDIDC+ E+ +R+     DE    +VTLSG+LNF+DGLWSS GDERIIVFT
Sbjct:   292 TTNRSILVIEDIDCNAEVRDREAENQEDEQIKGKVTLSGILNFIDGLWSSFGDERIIVFT 351

Query:   349 TNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK--SHSMFDEIEELIKEVE 406
             TN+KERLDPALLRPGRMD+HI+MSY T  GF+ L  NYL +   +H + +EIE L+   E
Sbjct:   352 TNHKERLDPALLRPGRMDVHINMSYCTGLGFRTLVSNYLGLDGLNHPLCEEIEALVDSTE 411

Query:   407 VTPAE---EFMKSEDADVALNGLVDFLLRKKEQTMK 439
             VTPAE   E M+ +D DV L G++ F+ ++K +  K
Sbjct:   412 VTPAELAEELMQDDDTDVVLRGVISFVEKRKVERSK 447

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0005783 "endoplasmic reticulum" evidence=IDA

TAIR|locus:2175986 AT5G17760 [Arabidopsis thaliana (taxid:3702)]

 Score = 1027 (366.6 bits), Expect = 1.1e-103, P = 1.1e-103
 Identities = 224/463 (48%), Positives = 305/463 (65%)

Query:     1 MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQ-L 59
             +PS +SV + Y + A   M++R++ +E+       IP  LQD +   L  LF + S   L
Sbjct:     7 LPSPTSVFTAYASMAGYMMMIRSMAHEL-------IPAPLQDFIYRTLRSLFFRSSSSTL 59

Query:    60 TLIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFE 119
             TL I+       NEIY+AA+ YLST+I+P   +LR+S+  ++K +++ +++G+ V D +E
Sbjct:    60 TLTIDDDNMGMNNEIYRAAQTYLSTKISPDAVRLRISKGHKDKHVNLYLSDGEIVNDVYE 119

Query:   120 GMQLTWELVTTENQKTSLDYDSGLYAS--------ETAHKS--FHLSFSKLFKDKVLNKY 169
              +QL W  VT    K       G            +   KS  F LSF K  KD +LN Y
Sbjct:   120 DVQLVWRFVTDGGDKKGGGGGVGGRGGGGGRRGGMDDDGKSEYFELSFDKKHKDLILNSY 179

Query:   170 LPYVAERSKAIKETKKVIKLYSLCAA--DAINLDHPSTFDTLAMDPVLKQALIDDLDRFV 227
             +PY+  ++K I++ ++++ L+SL +   +++ L+HPSTF+T+AM+  LK+ +I+DLDRF+
Sbjct:   180 VPYIESKAKEIRDERRILMLHSLNSLRWESVILEHPSTFETMAMEDDLKRDVIEDLDRFI 239

Query:   228 KRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEXXXXXXXXXXXXXX 287
             +R+EFY RVGKAWKRGYLLYGPPGTGKSSL+AAMANYLKFD+YD++              
Sbjct:   240 RRKEFYKRVGKAWKRGYLLYGPPGTGKSSLVAAMANYLKFDVYDLQLASVMRDSDLRRLL 299

Query:   288 VSTGNRSILVIEDIDCSIELENR--QCGGGYDENNSQ--VTLSGLLNFVDGLWSSCGDER 343
             ++T NRSILVIEDIDC+++L NR  Q   G +   SQ  +TLSGLLNF+DGLWSSCGDER
Sbjct:   300 LATRNRSILVIEDIDCAVDLPNRIEQPVEGKNRGESQGPLTLSGLLNFIDGLWSSCGDER 359

Query:   344 IIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKS----HSMFDEIE 399
             II+FTTN+K+RLDPALLRPGRMDMHI+M + +  GFK LA NYL +      H +F EIE
Sbjct:   360 IIIFTTNHKDRLDPALLRPGRMDMHIYMGHCSFQGFKTLASNYLGLSDAAMPHRLFPEIE 419

Query:   400 ELIKEVEVTPA---EEFMKSEDADVALNGLVDFL----LRKKE 435
              LI    +TPA   EE MKSEDADVAL GLV+ L    L+ KE
Sbjct:   420 RLIDGEVMTPAQVAEELMKSEDADVALEGLVNVLEKMRLKSKE 462

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

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

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

GO:0009627 "systemic acquired resistance" evidence=RCA

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

TAIR|locus:2053109 AT2G18190 [Arabidopsis thaliana (taxid:3702)]

 Score = 1022 (364.8 bits), Expect = 3.7e-103, P = 3.7e-103
 Identities = 222/461 (48%), Positives = 299/461 (64%)

Query:     2 PSTSSV-LSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
             PS S++ LS  + F A A L   ++   +++ N  +P++L+  ++  L   F   S  LT
Sbjct:     3 PSISNISLSPSSLFTAYASLTGFLML-FRSLFNDEVPERLRSYITDLLNRFFTPKSKNLT 61

Query:    61 LIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEG 120
             ++I++  GF  N+++ AAE+YL  +I P   +LRV + P++K  ++ I +G++++DTFE 
Sbjct:    62 MVIDEIIGFKRNQVFDAAEVYLRNKIGPETARLRVGKLPKQKHFTIYIEKGEEILDTFEN 121

Query:   121 MQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAI 180
              +L W  V +EN+           AS+   + + L+F K  +DKV+N YL +V   S+  
Sbjct:   122 SELRWTYVESENE-----------ASQKEKRYYELTFEKKLRDKVMNSYLSHVVAESEET 170

Query:   181 KETKKVIKLYS-----------LCAAD--AINLDHPSTFDTLAMDPVLKQALIDDLDRFV 227
             K   + +KLYS           +  A    INL+HPSTF+TLAMDP  K+ +IDD++RF+
Sbjct:   171 KRDLRAVKLYSRDVRASKDDDGMAGAGWGCINLEHPSTFETLAMDPGAKKKIIDDMERFL 230

Query:   228 KRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEXXXXXXXXXXXXXX 287
             KRREFY RVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD++D+E              
Sbjct:   231 KRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIYENAQLKSIL 290

Query:   288 VSTGNRSILVIEDIDCS-IELENRQCGG--GYDENN-SQVTLSGLLNFVDGLWSSCGDER 343
             +ST NRSILVIEDIDCS  E+ +R+      Y+E    +VTLSGLLNFVDGLWSS GDER
Sbjct:   291 LSTTNRSILVIEDIDCSSAEVVDREADEYQEYEEGYYGRVTLSGLLNFVDGLWSSFGDER 350

Query:   344 IIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK--SHSMFDEIEEL 401
             IIVFTTN+KERLDPALLRPGRMDMHI+MSY T  GF+ L  NYL +   +H + +EIE L
Sbjct:   351 IIVFTTNHKERLDPALLRPGRMDMHINMSYCTGLGFRTLVSNYLGLGGLNHPLCEEIEAL 410

Query:   402 IKEVEVTPAE---EFMKSEDADVALNGLVDFLLRKKEQTMK 439
             I   EVTPAE   E M+ +D DV L G+V F+  +K +  K
Sbjct:   411 IDSTEVTPAELAEELMQEDDTDVVLRGVVSFVENRKVEISK 451

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:2175956 AT5G17740 [Arabidopsis thaliana (taxid:3702)]

 Score = 985 (351.8 bits), Expect = 3.1e-99, P = 3.1e-99
 Identities = 206/460 (44%), Positives = 294/460 (63%)

Query:     1 MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
             +PS +S+ STY +     M+++ ++N +       IP+ +Q+ + S L+   G  S  LT
Sbjct:     7 IPSPASMFSTYASMMGYVMIIKPMINTI-------IPRPVQNFVFSYLKSFAGSRSSTLT 59

Query:    61 LIIEQSEGFSV-NEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFE 119
             L I+Q     + +E+Y AA+ YLST+I+P+  +L +++ P EK + + +++G+ V D + 
Sbjct:    60 LTIDQMSSMYIPDELYAAAQAYLSTKISPNSVRLIMARDPAEKKVKLYLSDGEVVSDVYN 119

Query:   120 GMQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKA 179
             G++L W  +      T ++     Y      +S  LSF K  +D V+N Y+PYV  ++K 
Sbjct:   120 GIKLKWRFLARNKNNTMVEEYGQSYQGNIQRESLELSFDKKHRDLVVNSYIPYVESKAKE 179

Query:   180 IKETKKVIKL--YSLCAA--DAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSR 235
             +   ++++K+  YS  A    ++N  HPSTFDT+AM+  LK+++I+DLDRFV R++FY R
Sbjct:   180 VNNKRRILKMHCYSHMAQTWQSVNFKHPSTFDTMAMNDDLKRSMIEDLDRFVGRKDFYKR 239

Query:   236 VGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEXXXXXXXXXXXXXXVSTGNRSI 295
             VGKAWKRGYLLYGPPGTGKSSL+AAMANYLKFDIYD++              ++T N SI
Sbjct:   240 VGKAWKRGYLLYGPPGTGKSSLVAAMANYLKFDIYDLQLASVQGDAHLRSLLLATNNSSI 299

Query:   296 LVIEDIDCSIELENR-----QCGG--GYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFT 348
             L+IEDIDCS++L  R     +     G  + +  +TLSGLLN +DGLWSSCG+ERII+FT
Sbjct:   300 LLIEDIDCSVDLPTRLQPPTETSQPLGAVQVSKPLTLSGLLNCIDGLWSSCGNERIIIFT 359

Query:   349 TNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK-----SHSMFDEIEELIK 403
             TN KE+LDPALLRPGRMDMHI+M + +  GFK LA NYL +      +H +  +I+ LI 
Sbjct:   360 TNNKEKLDPALLRPGRMDMHIYMGHCSFQGFKTLASNYLGLSDENDDTHPLCPDIKHLID 419

Query:   404 EVEVTPA---EEFMKSEDADVALNGLVDFLLRKKEQTMKC 440
                +TPA   EE MK EDAD AL GLV  L RK+ +  KC
Sbjct:   420 GHVLTPAQVAEELMKDEDADAALEGLVKVLKRKRLEPKKC 459

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:2175946 AT5G17730 [Arabidopsis thaliana (taxid:3702)]

 Score = 970 (346.5 bits), Expect = 1.2e-97, P = 1.2e-97
 Identities = 199/452 (44%), Positives = 284/452 (62%)

Query:     1 MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLT 60
             +PS +  +S Y +     M+++  L     +T   IP  LQ+ + S L          LT
Sbjct:     7 LPSLAPFVSAYASLTGYVMMIKPFLE----MT---IPPPLQNYMISYLNSFLHSTPSTLT 59

Query:    61 LIIEQS-EGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFE 119
             LII+   +    NE+Y AA++Y+ST++  + ++LR+S+   EK++++  + G+ V D ++
Sbjct:    60 LIIDDHIKNGMYNELYGAAQVYISTKVNHNAERLRISRDRSEKNVNIHFSVGEVVSDIYQ 119

Query:   120 GMQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKA 179
             G+++ W      N+   + Y    +      +   LSF K   + VLN Y+PYV  ++K 
Sbjct:   120 GIEVKWRFCVDSNKSNMVHYFGEHFKLNPDRECVELSFEKKHTELVLNSYIPYVESKAKV 179

Query:   180 IKETKKVIKLYSLCAA----DAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSR 235
             I   +K++K+YS C       ++NL+HPSTFDT+AM+  LK++++ DLDRF++R++FY R
Sbjct:   180 INNERKILKMYSYCCMYLKWQSVNLEHPSTFDTMAMNEELKRSVMGDLDRFIRRKDFYKR 239

Query:   236 VGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEXXXXXXXXXXXXXXVSTGNRSI 295
             VGK WKRGYLLYGPPGTGK+SL+AA+ANYLKFDIYD++              + T N SI
Sbjct:   240 VGKPWKRGYLLYGPPGTGKTSLVAAIANYLKFDIYDLQLASVREDADLRRLLLGTTNSSI 299

Query:   296 LVIEDIDCSIELENRQCGGGYDEN--NSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE 353
             L++EDIDC+++L  R      D+   +S +TLSGLL  +DGLWSSCGDERI++FTT +KE
Sbjct:   300 LLVEDIDCAVDLHTRLQPKTQDDTKGSSMLTLSGLLTCIDGLWSSCGDERIVIFTTTHKE 359

Query:   354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKS---HSMFDEIEELIKEVEVTPA 410
             RLDPALLRPGRMDMHIHM +     FK LA NYL +     H ++ EIE LIK   +TPA
Sbjct:   360 RLDPALLRPGRMDMHIHMGHCCFDVFKTLASNYLGLSHDDPHHLYPEIERLIKGEVLTPA 419

Query:   411 ---EEFMKSEDADVALNGLVDFLLRKKEQTMK 439
                EE MK+ED DVAL GLV  L RK+ +  K
Sbjct:   420 QVAEELMKNEDPDVALEGLVKVLKRKRLELEK 451

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:2037186 AT1G43910 [Arabidopsis thaliana (taxid:3702)]

 Score = 837 (299.7 bits), Expect = 1.5e-83, P = 1.5e-83
 Identities = 189/437 (43%), Positives = 266/437 (60%)

Query:     1 MPSTSSVLSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGK-FSDQL 59
             +PS S+V S YT+F+A  ML RTILNE+       +P+++++ ++ K    F   F    
Sbjct:     8 VPSVSAVFSLYTSFSAITMLFRTILNEI-------VPKRIREYIAMKAVDFFSSYFQSDF 60

Query:    60 TLIIEQSEGFSVNEIYQAAELYLSTRITP-SIQQLRVSQA----PR-EKSLSVTINEGQK 113
             T +IEQ   F  N+ ++AAE+YL T +   S  +L V  +    P  E  L + +N   K
Sbjct:    61 TFVIEQRWEFVENQTFRAAEVYLPTCLAGLSTGKLLVGSSNLKNPAAEPKLGIPVNT--K 118

Query:   114 VVDTFEGMQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYV 173
             ++D FEG+ L W L + E +K         Y  E  +  FHL+  K F++K++  Y  Y+
Sbjct:   119 IIDNFEGIHLEWTLHSVETKK---------YLPEKRY--FHLTCKKEFREKIMTDYFTYL 167

Query:   174 AERSKAIKETKKVIKLYSL----CAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKR 229
             A+ ++ I   ++ +K+Y+        ++   +H +TF+TLA++P LK+ LIDDLD F K 
Sbjct:   168 AKSAEKIMSHRENLKIYTYNQDRSKWESAIFEHHTTFETLAVEPDLKKTLIDDLDAFSKG 227

Query:   230 REFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEXXXXXXXXXXXXXXVS 289
             ++F+  VG+AWKRGYLLYGPPGTGKSS++AA+AN++K+ IYD++               S
Sbjct:   228 KDFFKSVGRAWKRGYLLYGPPGTGKSSMVAAIANHMKYHIYDLQIQSVRDDGELREILTS 287

Query:   290 TGNRSILVIEDIDCSIELENRQCG------GGYDENNSQ---------VTLSGLLNFVDG 334
             T NRSIL+IEDIDC  +   R+        GG D+   Q         ++LSGLLNFVDG
Sbjct:   288 TKNRSILLIEDIDCGADASRRRQSKKKEEDGGEDDGEPQKRKKKFEVGISLSGLLNFVDG 347

Query:   335 LWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM 394
             LWSSCG+E+II+FTTN+KE+LDPALLRPGRMD+HI M   TP  FK L   YLK   H +
Sbjct:   348 LWSSCGEEKIIIFTTNHKEKLDPALLRPGRMDVHILMDNCTPFVFKKLVALYLKTDEHVL 407

Query:   395 FDEIEELIKEVEVTPAE 411
             FD IE+LI EV  TPAE
Sbjct:   408 FDPIEKLILEVSSTPAE 424

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0009737 "response to abscisic acid stimulus" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0005783 "endoplasmic reticulum" evidence=IDA

TAIR|locus:505006520 AT4G25835 [Arabidopsis thaliana (taxid:3702)]

 Score = 535 (193.4 bits), Expect = 7.4e-80, Sum P(2) = 7.4e-80
 Identities = 124/334 (37%), Positives = 185/334 (55%)

Query:     8 LSTYTTFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLTLIIEQSE 67
             +  Y T  AS +    +L   Q++ N   P +L+  +S      F  FS      I + +
Sbjct:     1 MKEYWTSLASLL---GVLAFCQSLMNSVFPPELRFAISKLFNKFFKLFSTFCYFDITEID 57

Query:    68 GFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEGMQLTWEL 127
             G + NE+Y A +LYLS+ ++ +  +L +++A    S++  ++    +VDTF  + + WE 
Sbjct:    58 GVNTNELYNAVQLYLSSSVSIAGNRLSLTRAVNSSSVTFGLSNNDSIVDTFNSVTVVWEH 117

Query:   128 VTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVI 187
             + T+ Q  +  +           + F L   K  K+ +L+ YL Y+ E++  I+   +  
Sbjct:   118 IVTQRQTQTFAWRP----MPEEKRGFTLRIKKKDKNLILDSYLDYIMEKANEIRRLNQDR 173

Query:   188 KLY------SLCAA----DAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVG 237
              LY      SL +     +++   HPSTFDTLAMDPV KQ +++DL  F + + FY R G
Sbjct:   174 LLYTNSRGGSLDSRGLPWESVPFKHPSTFDTLAMDPVKKQQIMEDLKDFAECQSFYERTG 233

Query:   238 KAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEXXXXXXXXXXXXXXVSTGNRSILV 297
             +AWKRGYLLYGPPGTGKSS+IAAMANYL++DIYD+E              + T ++SI+V
Sbjct:   234 RAWKRGYLLYGPPGTGKSSMIAAMANYLRYDIYDLELTEVKSNSELRKLLMKTSSKSIIV 293

Query:   298 IEDIDCSIELENR---QCGGGYDENNSQVTLSGL 328
             IEDIDCSI L NR   Q  G Y+E    +T SGL
Sbjct:   294 IEDIDCSINLTNRNKKQSTGSYNEPE-MLTGSGL 326

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:2175976 AT5G17750 [Arabidopsis thaliana (taxid:3702)]

 Score = 799 (286.3 bits), Expect = 1.6e-79, P = 1.6e-79
 Identities = 158/348 (45%), Positives = 233/348 (66%)

Query:    69 FS-VNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEGMQLTWEL 127
             FS +     + + YLS++I+P   +LR+++ P  K++++ +++G+ V D ++G++L W  
Sbjct:    44 FSYIKSFVGSPQAYLSSKISPDASKLRMTRDPNNKNVNLHLSQGEVVSDVYKGIELKWRY 103

Query:   128 VTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVI 187
             +   N+KT++  +    A     + F LSF K  KD V+  Y+ YV  ++K IKE +++I
Sbjct:   104 LEGRNKKTTVVGEETEEAIVN-WQCFELSFDKKHKDLVVKSYIAYVERKAKVIKEERRII 162

Query:   188 KLYSLCAA----DAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRG 243
             K++S  +      ++  +HPSTF T+AM P LK ++++DLDRF+KR+++Y RVGKAWKR 
Sbjct:   163 KMHSYSSYTLRWQSVKFEHPSTFHTMAMTPKLKSSVMEDLDRFIKRKDYYKRVGKAWKRS 222

Query:   244 YLLYGPPGTGKSSLIAAMANYLKFDIYDMEXXXXXXXXXXXXXXVSTGNRSILVIEDIDC 303
             Y LYGPPGTGKSSL+AAMANYLKFDIYD++              ++T N SIL++EDIDC
Sbjct:   223 YFLYGPPGTGKSSLVAAMANYLKFDIYDLQLANVQGDAQLRSLLLATNNSSILLVEDIDC 282

Query:   304 SIELENRQCGG----GYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPAL 359
             S++L  R        G  + ++ +TLSGLLN +DGLWSSCGDERI++FTTN KE LDPAL
Sbjct:   283 SVDLPTRLQPATTTLGAPKGSTPLTLSGLLNCIDGLWSSCGDERIVIFTTNNKEVLDPAL 342

Query:   360 LRPGRMDMHIHMSYLTPGGFKILAFNYLKIKS-----HSMFDEIEELI 402
             LRPG MDMHI++ + +  GFKILA NYL +       H ++ +I+ LI
Sbjct:   343 LRPGCMDMHIYLGHCSFEGFKILASNYLGMPHDSDDPHRLYPDIKRLI 390

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	455
pfam14363	100	pfam14363, AAA_assoc, Domain associated at C-termi	1e-33
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	4e-21
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	2e-14
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	1e-13
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	2e-13
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	8e-13
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	2e-12
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	2e-12
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	8e-12
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	7e-11
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	9e-11
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	2e-10
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	5e-10
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	4e-09
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	1e-08
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	2e-07
smart00382	148	smart00382, AAA, ATPases associated with a variety	1e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-05
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	1e-04
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	2e-04
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	9e-04
COG1484	254	COG1484, DnaC, DNA replication protein [DNA replic	0.001
PRK08116	268	PRK08116, PRK08116, hypothetical protein; Validate	0.001
PRK06851	367	PRK06851, PRK06851, hypothetical protein; Provisio	0.002
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	0.003
pfam05673	248	pfam05673, DUF815, Protein of unknown function (DU	0.003
PRK08939	306	PRK08939, PRK08939, primosomal protein DnaI; Revie	0.003

>gnl|CDD|222710 pfam14363, AAA_assoc, Domain associated at C-terminal with AAA

 Score =  121 bits (306), Expect = 1e-33
 Identities = 45/100 (45%), Positives = 73/100 (73%), Gaps = 3/100 (3%)

Query: 35  FIPQKLQDILSSKLEGLFGK-FSDQLTLIIEQSEGFSVNEIYQAAELYLSTRITPSIQQL 93
            +P +L++ LSS L  LFG  FS  LT++I++ +GFS N++Y AAE YLST+I+PS ++L
Sbjct: 1   LLPHELREYLSSLLRRLFGSRFSPYLTIVIDEYDGFSRNQLYDAAEAYLSTKISPSARRL 60

Query: 94  RVSQAPREK--SLSVTINEGQKVVDTFEGMQLTWELVTTE 131
           + S+A + K  SL +++++G++V D FEG+++ W  V TE
Sbjct: 61  KASKAKKSKNSSLVLSLDDGEEVTDVFEGVKVWWTSVVTE 100

This domain is found in association with the AAA family, pfam00004. Length = 100

>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score = 88.4 bits (220), Expect = 4e-21
 Identities = 45/138 (32%), Positives = 69/138 (50%), Gaps = 15/138 (10%)

Query: 244 YLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN------SDLRRLL--VSTGNRSI 295
            LLYGPPGTGK++L  A+A  L     ++  + L S         LR L          +
Sbjct: 1   LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCV 60

Query: 296 LVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERL 355
           + I++ID ++   +R  GG  +   S+  ++ LL  +DG  +S   + I++  TN  ++L
Sbjct: 61  IFIDEID-AL-AGSRGSGGDSE---SRRVVNQLLTELDGF-TSSLSKVIVIAATNRPDKL 114

Query: 356 DPALLRPGRMDMHIHMSY 373
           DPALLR GR D  I    
Sbjct: 115 DPALLR-GRFDRIIEFPL 131

AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes. Length = 131

>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

 Score = 74.5 bits (183), Expect = 2e-14
 Identities = 52/205 (25%), Positives = 89/205 (43%), Gaps = 18/205 (8%)

Query: 175 ERSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYS 234
                  + ++ +K            +  +  D   ++   K+ L + ++  +KR E + 
Sbjct: 211 YIGVTEDDFEEALKKVLPSRGVLFEDEDVTLDDIGGLEEA-KEELKEAIETPLKRPELFR 269

Query: 235 RVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK--------FDIYDMELASLRSNSDLRRL 286
           ++G    +G LLYGPPGTGK+ L  A+A   +         ++    +     N      
Sbjct: 270 KLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGESEKNIRELFE 329

Query: 287 LVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSG-LLNFVDGLWSSCGDERII 345
                  SI+ I++ID S+       G G  E+ S   + G LL  +DG+     +  ++
Sbjct: 330 KARKLAPSIIFIDEID-SLAS-----GRGPSEDGSGRRVVGQLLTELDGI--EKAEGVLV 381

Query: 346 VFTTNYKERLDPALLRPGRMDMHIH 370
           +  TN  + LDPALLRPGR D  I+
Sbjct: 382 IAATNRPDDLDPALLRPGRFDRLIY 406

Length = 494

>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH

 Score = 72.3 bits (178), Expect = 1e-13
 Identities = 66/212 (31%), Positives = 95/212 (44%), Gaps = 36/212 (16%)

Query: 205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSL---IAAM 261
           TF  +A     K+ L++ +D F+K    ++++G    +G LL GPPGTGK+ L   +A  
Sbjct: 53  TFKDVAGIDEAKEELMEIVD-FLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGE 111

Query: 262 ANYLKFDIYDMELASLRSNSDLRRLLVSTG-NR-------------SILVIEDIDCSIEL 307
           A    F I         S SD   + V  G +R              I+ I++ID     
Sbjct: 112 AGVPFFSI---------SGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQ 162

Query: 308 ENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDM 367
                GGG DE     TL+ LL  +DG  ++ G   I++  TN  + LDPALLRPGR D 
Sbjct: 163 RGAGLGGGNDEREQ--TLNQLLVEMDGFGTNTG--VIVIAATNRPDVLDPALLRPGRFDR 218

Query: 368 HIHMSYLTP---GGFKILAFNYLKIKSHSMFD 396
            + +    P   G  +IL  +    K     D
Sbjct: 219 QVVVD--LPDIKGREEILKVHAKNKKLAPDVD 248

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 [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 495

>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated

 Score = 72.0 bits (177), Expect = 2e-13
 Identities = 51/152 (33%), Positives = 74/152 (48%), Gaps = 12/152 (7%)

Query: 226 FVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR------S 279
           F+K+ E ++ VG    +G LL GPPGTGK+ L  A+A   +   + +  +          
Sbjct: 201 FLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVG 260

Query: 280 NSDLRRLLVSTGNRS--ILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS 337
            + +R L       S  I+ I++ID          GGG DE   + TL+ LL  +DG   
Sbjct: 261 AARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDE--REQTLNQLLTEMDGFKG 318

Query: 338 SCGDERIIVFTTNYKERLDPALLRPGRMDMHI 369
           + G   I++  TN  + LD ALLRPGR D  I
Sbjct: 319 NKG--VIVIAATNRVDILDAALLRPGRFDRQI 348

Length = 638

>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

 Score = 69.6 bits (171), Expect = 8e-13
 Identities = 56/167 (33%), Positives = 79/167 (47%), Gaps = 42/167 (25%)

Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS-LR-SNSDLR 284
           +K  E +  +G    +G LLYGPPGTGK+ L  A+AN           A+ +R   S+L 
Sbjct: 171 LKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTD--------ATFIRVVGSELV 222

Query: 285 RLLVSTGNR--------------SILVIEDIDCSIELENRQCGGG--YDENNS-----QV 323
           +  +  G R              SI+ I++ID +I        G   +D   S     Q 
Sbjct: 223 QKYIGEGARLVRELFELAREKAPSIIFIDEID-AI--------GAKRFDSGTSGDREVQR 273

Query: 324 TLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIH 370
           T+  LLN +DG +   G+ ++I   TN  + LDPALLRPGR D  I 
Sbjct: 274 TMLELLNQLDG-FDPRGNVKVI-MATNRPDILDPALLRPGRFDRKIE 318

Length = 406

>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed

 Score = 69.3 bits (169), Expect = 2e-12
 Identities = 52/165 (31%), Positives = 78/165 (47%), Gaps = 26/165 (15%)

Query: 220 IDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS 279
           + +L  +++    + ++G    +G L+ GPPGTGK+ L  A+A   K   + +      S
Sbjct: 164 VAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTI------S 217

Query: 280 NSDLRRLLVSTGNRS--------------ILVIEDIDCSIELENRQCGGGYDENNSQVTL 325
            SD   + V  G                 I+ I++ID          GGG+DE   + TL
Sbjct: 218 GSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDER--EQTL 275

Query: 326 SGLLNFVDGLWSSCGDERIIVFT-TNYKERLDPALLRPGRMDMHI 369
           + +L  +DG     G+E IIV   TN  + LDPALLRPGR D  +
Sbjct: 276 NQMLVEMDGFE---GNEGIIVIAATNRPDVLDPALLRPGRFDRQV 317

Length = 644

>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like protein; Provisional

 Score = 68.3 bits (167), Expect = 2e-12
 Identities = 57/148 (38%), Positives = 80/148 (54%), Gaps = 14/148 (9%)

Query: 231 EFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLKFDIYDMELASLRSNSDLRR 285
           E Y  +G    +G +LYGPPGTGK+ L  A+AN     +L+    ++    L     L R
Sbjct: 207 ELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLGDGPKLVR 266

Query: 286 LL--VSTGNR-SILVIEDIDC-SIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGD 341
            L  V+  N  SI+ I++ID    +  +   GG   E   Q T+  LLN +DG + S GD
Sbjct: 267 ELFRVAEENAPSIVFIDEIDAIGTKRYDATSGG---EKEIQRTMLELLNQLDG-FDSRGD 322

Query: 342 ERIIVFTTNYKERLDPALLRPGRMDMHI 369
            ++I+  TN  E LDPAL+RPGR+D  I
Sbjct: 323 VKVIM-ATNRIESLDPALIRPGRIDRKI 349

Length = 438

>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

 Score = 67.0 bits (164), Expect = 8e-12
 Identities = 63/185 (34%), Positives = 84/185 (45%), Gaps = 35/185 (18%)

Query: 204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMAN 263
            TF  +A     K+ L + +D F+K  + Y  +G    +G LL GPPGTGK+ L  A+A 
Sbjct: 147 VTFADVAGVDEAKEELSELVD-FLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAG 205

Query: 264 YLKFDIYDMELASLRSNSDLRRLLVSTGNR--------------SILVIEDIDCSIELEN 309
                 + +      S SD   + V  G                 I+ I++ID       
Sbjct: 206 EAGVPFFSI------SGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEID----AVG 255

Query: 310 RQ----CGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFT-TNYKERLDPALLRPGR 364
           RQ     GGG DE     TL+ LL  +DG     G+E +IV   TN  + LDPALLRPGR
Sbjct: 256 RQRGAGLGGGNDEREQ--TLNQLLVEMDG---FGGNEGVIVIAATNRPDVLDPALLRPGR 310

Query: 365 MDMHI 369
            D  I
Sbjct: 311 FDRQI 315

Length = 596

>gnl|CDD|99707 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

 Score = 59.9 bits (145), Expect = 7e-11
 Identities = 31/147 (21%), Positives = 46/147 (31%), Gaps = 28/147 (19%)

Query: 241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM--------------ELASLRSNSDLRRL 286
            +  LLYGPPGTGK++L  A+AN L                               L   
Sbjct: 19  PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFE 78

Query: 287 LVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIV 346
           L       +L I++ID    L          +N     L  L +          +   ++
Sbjct: 79  LAEKAKPGVLFIDEID---SLSRG------AQNALLRVLETLNDLRIDR-----ENVRVI 124

Query: 347 FTTNYKERLDPALLRPGRMDMHIHMSY 373
             TN     D       R+D+ I +  
Sbjct: 125 GATNRPLLGDLDRALYDRLDIRIVIPL 151

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. Length = 151

>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like protein; Provisional

 Score = 62.9 bits (153), Expect = 9e-11
 Identities = 51/152 (33%), Positives = 73/152 (48%), Gaps = 14/152 (9%)

Query: 231 EFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---FDIYDMELASL------RSNS 281
           E Y ++G    RG LLYGPPGTGK+ L  A+A++       +   E          R   
Sbjct: 169 ELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYLGEGPRMVR 228

Query: 282 DLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGD 341
           D+ R L      SI+ I+++D SI  +      G D    ++ L  LLN +DG   +   
Sbjct: 229 DVFR-LARENAPSIIFIDEVD-SIATKRFDAQTGADREVQRILLE-LLNQMDGFDQTTNV 285

Query: 342 ERIIVFTTNYKERLDPALLRPGRMDMHIHMSY 373
           +  ++  TN  + LDPALLRPGR+D  I    
Sbjct: 286 K--VIMATNRADTLDPALLRPGRLDRKIEFPL 315

Length = 398

>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family

 Score = 62.1 bits (151), Expect = 2e-10
 Identities = 53/158 (33%), Positives = 73/158 (46%), Gaps = 26/158 (16%)

Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR-SNSDLRR 285
           +K  E +  VG    +G LLYGPPGTGK+ L  A+A+       +     +R   S+L R
Sbjct: 142 LKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAH-------ETNATFIRVVGSELVR 194

Query: 286 LLVSTGNR--------------SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF 331
             +  G R              SI+ I++ID            G  +   Q TL  LL  
Sbjct: 195 KYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSG--DREVQRTLMQLLAE 252

Query: 332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHI 369
           +DG +   G+ ++I   TN  + LDPALLRPGR D  I
Sbjct: 253 LDG-FDPRGNVKVIA-ATNRPDILDPALLRPGRFDRII 288

Many proteins may score above the trusted cutoff because an internal. Length = 364

>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score = 61.5 bits (149), Expect = 5e-10
 Identities = 52/152 (34%), Positives = 74/152 (48%), Gaps = 17/152 (11%)

Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM---ELASL---RSN 280
           +K  E +  +G    +G LLYGPPGTGK+ L  A+AN        +   E+ S     S 
Sbjct: 198 MKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESE 257

Query: 281 SDLRRLL--VSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS 338
             LR +         SI+ I++ID +I  +  +  G  ++      ++ LL  +DGL   
Sbjct: 258 ERLREIFKEAEENAPSIIFIDEID-AIAPKREEVTGEVEKR----VVAQLLTLMDGLK-- 310

Query: 339 CGDERIIVF-TTNYKERLDPALLRPGRMDMHI 369
            G  R+IV   TN  + LDPAL RPGR D  I
Sbjct: 311 -GRGRVIVIGATNRPDALDPALRRPGRFDREI 341

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. Length = 733

>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score = 58.8 bits (142), Expect = 4e-09
 Identities = 56/203 (27%), Positives = 92/203 (45%), Gaps = 22/203 (10%)

Query: 216 KQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM--- 272
           KQ L + ++  +K  E + ++G    +G LL+GPPGTGK+ L  A+A     +   +   
Sbjct: 462 KQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGP 521

Query: 273 ELASL---RSNSDLRRLL--VSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSG 327
           E+ S     S   +R +         +I+  ++ID          G  +D + +   ++ 
Sbjct: 522 EILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPAR----GARFDTSVTDRIVNQ 577

Query: 328 LLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL 387
           LL  +DG+        +++  TN  + LDPALLRPGR D  I    L P   +       
Sbjct: 578 LLTEMDGIQELSN--VVVIAATNRPDILDPALLRPGRFDRLI----LVPPPDEEARKEIF 631

Query: 388 KIKSHSMF----DEIEELIKEVE 406
           KI + SM      ++EEL +  E
Sbjct: 632 KIHTRSMPLAEDVDLEELAEMTE 654

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. Length = 733

>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase; Provisional

 Score = 56.0 bits (136), Expect = 1e-08
 Identities = 53/161 (32%), Positives = 77/161 (47%), Gaps = 32/161 (19%)

Query: 228 KRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS-LR-SNSDLRR 285
           K+ E +  VG    +G LLYGPPGTGK+ L  A+A+           A+ +R   S+L +
Sbjct: 152 KKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN--------ATFIRVVGSELVQ 203

Query: 286 LLVSTGNR--------------SILVIEDIDC--SIELENRQCGGGYDENNSQVTLSGLL 329
             +  G R              SI+ I++ID   +   ++   G    +   Q TL  LL
Sbjct: 204 KFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSG----DREVQRTLMQLL 259

Query: 330 NFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIH 370
             +DG +   G+ +II   TN  + LDPA+LRPGR D  I 
Sbjct: 260 AEMDG-FDPRGNVKIIA-ATNRIDILDPAILRPGRFDRIIE 298

Length = 389

>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase

 Score = 53.2 bits (128), Expect = 2e-07
 Identities = 52/163 (31%), Positives = 74/163 (45%), Gaps = 30/163 (18%)

Query: 230 REFYSRVGKAWKRGYLLYGPPGTGKSSLIA-AMANYLKFDIYDM-------------ELA 275
            E Y   G    +G LLYGPPG GK +LIA A+AN L   I                EL 
Sbjct: 205 PELYREYGLKPPKGVLLYGPPGCGK-TLIAKAVANSLAARIGAEGGGKSYFLNIKGPELL 263

Query: 276 S---------LRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLS 326
           +         +R      R   S G   I+  +++D S+    R  G   D   + V   
Sbjct: 264 NKYVGETERQIRLIFQRAREKASEGRPVIVFFDEMD-SL-FRTRGSGVSSDVETTVV--P 319

Query: 327 GLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHI 369
            LL  +DG+ S   D  I++  +N ++ +DPA+LRPGR+D+ I
Sbjct: 320 QLLAEIDGVESL--DNVIVIGASNREDMIDPAILRPGRLDVKI 360

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 [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 512

>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 44.7 bits (105), Expect = 1e-05
 Identities = 33/145 (22%), Positives = 52/145 (35%), Gaps = 16/145 (11%)

Query: 241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIY-----DMELASLRSNSDLRRLLVSTGNRSI 295
               L+ GPPG+GK++L  A+A  L          D E         L  ++V     S 
Sbjct: 2   GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASG 61

Query: 296 LVIEDIDCSIELENRQCGG---------GYDENNSQVTLSGLLNFVDGLWSSCGDERIIV 346
                +  ++ L  +               D     + L      +  L  S  +   ++
Sbjct: 62  SGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKN-LTVI 120

Query: 347 FTTNYKERLDPALLRPGRMDMHIHM 371
            TTN ++ L PALLR  R D  I +
Sbjct: 121 LTTNDEKDLGPALLRR-RFDRRIVL 144

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. Length = 148

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 46.1 bits (110), Expect = 3e-05
 Identities = 18/53 (33%), Positives = 31/53 (58%), Gaps = 5/53 (9%)

Query: 238 KAWKRGY-----LLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRR 285
           ++W +G      LLYGPPG GK+SL  A+AN   +++ ++  +  R+   + R
Sbjct: 31  ESWLKGKPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTADVIER 83

Length = 482

>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed

 Score = 43.9 bits (105), Expect = 1e-04
 Identities = 23/64 (35%), Positives = 31/64 (48%), Gaps = 9/64 (14%)

Query: 245 LLYGPPGTGKSSLIAAMANYLKFDIYDMEL-ASLRSNSDLR------RLLVSTGNRSILV 297
           +L+GPPGTGK++L   +A           L A      DLR      R   S G R+IL 
Sbjct: 40  ILWGPPGTGKTTLARIIAGATDAPFE--ALSAVTSGVKDLREVIEEARQRRSAGRRTILF 97

Query: 298 IEDI 301
           I++I
Sbjct: 98  IDEI 101

Length = 413

>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

 Score = 43.3 bits (102), Expect = 2e-04
 Identities = 57/222 (25%), Positives = 88/222 (39%), Gaps = 28/222 (12%)

Query: 242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDME---LASLRSNSDLRRLLVST----GNRS 294
           +G LL+GPPGTGK+ L  A+AN     +       L+     S+LR   +         S
Sbjct: 19  KGVLLHGPPGTGKTLLARALANEGAEFLSINGPEILSKYVGESELRLRELFEEAEKLAPS 78

Query: 295 ILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER 354
           I+ I++ID       ++     +     V  + LL  +DGL      + I++  TN  + 
Sbjct: 79  IIFIDEIDALAP---KRSSDQGEVERRVV--AQLLALMDGL---KRGQVIVIGATNRPDG 130

Query: 355 LDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKE-VEVTPAE-- 411
           LDPA  RPGR D  I ++     G        L+I +  MF       K     T  +  
Sbjct: 131 LDPAKRRPGRFDREIEVNLPDEAGRLE----ILQIHTRLMFLGPPGTGKTLAARTVGKSG 186

Query: 412 ---EFMKSEDADVALNGLVDFLLRKKEQTMKCNEEENESLKN 450
                +  E A   L   +D +      T    ++  E+LK 
Sbjct: 187 ADLGALAKEAALRELRRAIDLVGEYIGVTE---DDFEEALKK 225

Length = 494

>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General function prediction only]

 Score = 41.0 bits (96), Expect = 9e-04
 Identities = 39/137 (28%), Positives = 61/137 (44%), Gaps = 22/137 (16%)

Query: 235 RVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL------RSNSDLRRL-- 286
           R G    +  L YGPPGTGK+ +  A+AN  K  +  ++   L           +  L  
Sbjct: 145 RFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGDGARRIHELYE 204

Query: 287 LVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVT--LSGLLNFVDGLWSSCGDERI 344
                   I+ I+++D +I L+ R     Y E    V+  ++ LL  +DG+  + G    
Sbjct: 205 RARKAAPCIVFIDELD-AIALDRR-----YQELRGDVSEIVNALLTELDGIKENEG---- 254

Query: 345 IVF--TTNYKERLDPAL 359
           +V    TN  E LDPA+
Sbjct: 255 VVTIAATNRPELLDPAI 271

Length = 368

>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]

 Score = 40.5 bits (95), Expect = 0.001
 Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 10/71 (14%)

Query: 197 AINLDHPSTFDT--LAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGK 254
           + +     TF+       P + +  ++DL   V   EF+ R         +L GPPG GK
Sbjct: 67  SASFPAKKTFEEFDFEFQPGIDKKALEDLASLV---EFFER-----GENLVLLGPPGVGK 118

Query: 255 SSLIAAMANYL 265
           + L  A+ N L
Sbjct: 119 THLAIAIGNEL 129

Length = 254

>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated

 Score = 40.4 bits (95), Expect = 0.001
 Identities = 14/28 (50%), Positives = 17/28 (60%)

Query: 238 KAWKRGYLLYGPPGTGKSSLIAAMANYL 265
           K    G LL+G  GTGK+ L A +AN L
Sbjct: 111 KKENVGLLLWGSVGTGKTYLAACIANEL 138

Length = 268

>gnl|CDD|235878 PRK06851, PRK06851, hypothetical protein; Provisional

 Score = 39.9 bits (94), Expect = 0.002
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 2/51 (3%)

Query: 232 FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSD 282
            Y  +     R ++L G PGTGKS+L+  +        YD+E   L  +SD
Sbjct: 21  LYDSIIDGANRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEF--LHCSSD 69

Length = 367

>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

 Score = 39.5 bits (93), Expect = 0.003
 Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 9/63 (14%)

Query: 246 LYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN-SDLR------RLLVSTGNRSILVI 298
           L+GPPGTGK++L   +A           L+++ S   DLR      R     G R+IL +
Sbjct: 53  LWGPPGTGKTTLARLIAGTTNAAFE--ALSAVTSGVKDLREIIEEARKNRLLGRRTILFL 110

Query: 299 EDI 301
           ++I
Sbjct: 111 DEI 113

Length = 436

>gnl|CDD|218685 pfam05673, DUF815, Protein of unknown function (DUF815)

 Score = 39.0 bits (92), Expect = 0.003
 Identities = 27/96 (28%), Positives = 42/96 (43%), Gaps = 28/96 (29%)

Query: 216 KQALIDDLDRFVKRREFYSRVGKAWKRGY-----LLYGPPGTGKSSLIAAMAN-----YL 265
           K+AL+ + ++F+               G      LL+G  GTGKSSL+ A+ N      L
Sbjct: 37  KEALLRNTEQFL--------------AGLPANNVLLWGARGTGKSSLVKALLNEYADQGL 82

Query: 266 KF-DIYDMELASLRSNSDLRRLLVSTGNRSILVIED 300
           +  ++   +L  L    D+  LL     R IL  +D
Sbjct: 83  RLIEVDKDDLGDL---PDIVDLLRGRPYRFILFCDD 115

This family consists of several bacterial proteins of unknown function. Length = 248

>gnl|CDD|236353 PRK08939, PRK08939, primosomal protein DnaI; Reviewed

 Score = 39.1 bits (92), Expect = 0.003
 Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 5/62 (8%)

Query: 205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANY 264
           +   + +D   +   +     F++             +G  LYG  G GKS L+AA+AN 
Sbjct: 125 SLADIDLDDRDRLDALMAALDFLEAYP-----PGEKVKGLYLYGDFGVGKSYLLAAIANE 179

Query: 265 LK 266
           L 
Sbjct: 180 LA 181

Length = 306

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	455
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	100.0
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	100.0
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	100.0
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	100.0
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	100.0
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	100.0
KOG0736	953	consensus Peroxisome assembly factor 2 containing	100.0
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	100.0
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.97
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.97
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.97
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.97
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.97
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.97
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.97
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.96
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.96
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.96
CHL00195	489	ycf46 Ycf46; Provisional	99.96
CHL00176	638	ftsH cell division protein; Validated	99.96
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.96
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.95
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.95
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.95
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.95
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.95
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.94
PF14363	98	AAA_assoc: Domain associated at C-terminal with AA	99.94
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.94
CHL00206	2281	ycf2 Ycf2; Provisional	99.94
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.93
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.92
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.91
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.91
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	99.9
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.9
PF00004	132	AAA: ATPase family associated with various cellula	99.82
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.81
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.79
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.78
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.76
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.76
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.75
CHL00181	287	cbbX CbbX; Provisional	99.74
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.73
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.73
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.7
PRK04195	482	replication factor C large subunit; Provisional	99.69
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.69
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.68
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.68
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.68
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.68
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.66
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.66
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.65
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.63
PLN03025	319	replication factor C subunit; Provisional	99.62
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.62
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.62
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.62
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.61
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.61
PRK06893	229	DNA replication initiation factor; Validated	99.61
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.61
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.61
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.6
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.6
PHA02544	316	44 clamp loader, small subunit; Provisional	99.6
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.59
PRK13342	413	recombination factor protein RarA; Reviewed	99.59
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.59
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.59
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.58
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.58
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.58
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.57
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.57
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.57
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.56
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.56
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.56
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	99.56
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.56
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.56
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.56
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.55
PRK10865	857	protein disaggregation chaperone; Provisional	99.55
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.54
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.54
PRK08727	233	hypothetical protein; Validated	99.54
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.54
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.53
PRK08084	235	DNA replication initiation factor; Provisional	99.53
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.52
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.52
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.52
PRK12402	337	replication factor C small subunit 2; Reviewed	99.52
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.52
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.52
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.51
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.51
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.51
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.5
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.5
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.5
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.49
PRK13341	725	recombination factor protein RarA/unknown domain f	99.49
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.48
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.47
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.47
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.47
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.47
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.46
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	99.45
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.45
CHL00095	821	clpC Clp protease ATP binding subunit	99.45
PRK12422	445	chromosomal replication initiation protein; Provis	99.44
PRK05642	234	DNA replication initiation factor; Validated	99.44
KOG2028	554	consensus ATPase related to the helicase subunit o	99.44
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.41
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.41
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.4
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.4
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.4
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.39
COG0714	329	MoxR-like ATPases [General function prediction onl	99.39
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.39
PRK06620	214	hypothetical protein; Validated	99.38
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.38
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.37
PHA02244	383	ATPase-like protein	99.36
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.35
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.34
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.34
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.33
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.33
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.33
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.32
PRK08181	269	transposase; Validated	99.3
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.3
PRK07952	244	DNA replication protein DnaC; Validated	99.29
PRK09087	226	hypothetical protein; Validated	99.27
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.27
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.26
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.24
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.24
PRK08116	268	hypothetical protein; Validated	99.23
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.23
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.22
PRK10865	857	protein disaggregation chaperone; Provisional	99.2
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.19
PRK06526	254	transposase; Provisional	99.19
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.19
PF07726	131	AAA_3: ATPase family associated with various cellu	99.18
PRK08939	306	primosomal protein DnaI; Reviewed	99.18
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.16
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.15
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.15
PRK12377	248	putative replication protein; Provisional	99.14
PRK13531	498	regulatory ATPase RavA; Provisional	99.13
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.13
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	99.13
CHL00095	821	clpC Clp protease ATP binding subunit	99.13
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.12
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.1
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.1
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.09
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.08
smart00382	148	AAA ATPases associated with a variety of cellular	99.08
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.08
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.07
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.06
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.05
smart00350	509	MCM minichromosome maintenance proteins.	99.05
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.04
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	99.02
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.02
COG1484	254	DnaC DNA replication protein [DNA replication, rec	99.01
PRK06835	329	DNA replication protein DnaC; Validated	98.98
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.97
PRK04132	846	replication factor C small subunit; Provisional	98.95
PRK11608	326	pspF phage shock protein operon transcriptional ac	98.93
PRK06964	342	DNA polymerase III subunit delta'; Validated	98.93
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	98.92
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.92
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.9
PRK09183	259	transposase/IS protein; Provisional	98.89
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.88
PRK06921	266	hypothetical protein; Provisional	98.88
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.87
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	98.84
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.83
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	98.83
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.79
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	98.79
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	98.79
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	98.78
PRK15424	538	propionate catabolism operon regulatory protein Pr	98.77
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	98.77
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.76
PRK06090	319	DNA polymerase III subunit delta'; Validated	98.75
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.73
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.73
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.72
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.72
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.69
PRK09862	506	putative ATP-dependent protease; Provisional	98.67
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.66
PRK05022	509	anaerobic nitric oxide reductase transcription reg	98.64
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.64
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.64
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	98.62
COG1221	403	PspF Transcriptional regulators containing an AAA-	98.6
PF13173	128	AAA_14: AAA domain	98.6
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	98.58
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.56
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	98.55
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.55
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.55
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	98.54
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	98.52
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.52
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	98.5
PHA02624	647	large T antigen; Provisional	98.5
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.49
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	98.46
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.45
PF05729	166	NACHT: NACHT domain	98.43
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.43
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.4
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.39
PRK05917	290	DNA polymerase III subunit delta'; Validated	98.37
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	98.37
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	98.36
PRK05818	261	DNA polymerase III subunit delta'; Validated	98.35
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.34
PRK07132	299	DNA polymerase III subunit delta'; Validated	98.34
PRK07276	290	DNA polymerase III subunit delta'; Validated	98.32
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.3
KOG1514	767	consensus Origin recognition complex, subunit 1, a	98.28
PHA02774	613	E1; Provisional	98.27
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	98.25
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.23
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.22
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	98.22
PRK15115	444	response regulator GlrR; Provisional	98.21
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	98.15
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.14
PHA00729	226	NTP-binding motif containing protein	98.14
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.09
COG2204	464	AtoC Response regulator containing CheY-like recei	98.07
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.05
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	98.03
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.99
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.99
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.98
PRK10365	441	transcriptional regulatory protein ZraR; Provision	97.97
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.95
PRK15455	644	PrkA family serine protein kinase; Provisional	97.94
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	97.93
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	97.9
COG1485	367	Predicted ATPase [General function prediction only	97.89
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	97.86
PRK00131	175	aroK shikimate kinase; Reviewed	97.85
PRK07261	171	topology modulation protein; Provisional	97.85
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	97.85
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.83
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.83
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.81
COG1241	682	MCM2 Predicted ATPase involved in replication cont	97.78
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.76
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.75
PRK08118	167	topology modulation protein; Reviewed	97.75
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.74
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.74
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	97.73
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.72
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.71
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.71
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.7
PF14516	331	AAA_35: AAA-like domain	97.7
PRK06067	234	flagellar accessory protein FlaH; Validated	97.69
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	97.69
) 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	97.67
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	97.64
PRK14737	186	gmk guanylate kinase; Provisional	97.64
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	97.62
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	97.62
PRK13947	171	shikimate kinase; Provisional	97.6
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.6
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.59
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.57
PRK03839	180	putative kinase; Provisional	97.57
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.56
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.55
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.54
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	97.54
PRK00625	173	shikimate kinase; Provisional	97.53
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	97.53
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.51
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.51
PRK13949	169	shikimate kinase; Provisional	97.51
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.51
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.51
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.5
PRK13765	637	ATP-dependent protease Lon; Provisional	97.49
PRK09376	416	rho transcription termination factor Rho; Provisio	97.48
PRK04040	188	adenylate kinase; Provisional	97.47
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.46
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	97.45
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	97.45
PRK13948	182	shikimate kinase; Provisional	97.44
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.42
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.42
PRK11823	446	DNA repair protein RadA; Provisional	97.4
PRK05973	237	replicative DNA helicase; Provisional	97.4
COG4619	223	ABC-type uncharacterized transport system, ATPase	97.4
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.39
PRK14532	188	adenylate kinase; Provisional	97.39
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.38
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.38
PRK06217	183	hypothetical protein; Validated	97.38
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.38
PRK14531	183	adenylate kinase; Provisional	97.37
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	97.37
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.37
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.36
PF13479	213	AAA_24: AAA domain	97.35
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.34
PRK13946	184	shikimate kinase; Provisional	97.34
KOG2383	467	consensus Predicted ATPase [General function predi	97.32
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.32
PRK05057	172	aroK shikimate kinase I; Reviewed	97.32
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.31
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.3
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.29
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.28
PRK12608	380	transcription termination factor Rho; Provisional	97.28
PRK08233	182	hypothetical protein; Provisional	97.27
PRK04841	903	transcriptional regulator MalT; Provisional	97.27
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.27
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.26
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.26
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.25
PRK03731	171	aroL shikimate kinase II; Reviewed	97.24
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.24
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	97.23
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	97.23
PRK06581	263	DNA polymerase III subunit delta'; Validated	97.22
PRK04296	190	thymidine kinase; Provisional	97.22
PRK14530	215	adenylate kinase; Provisional	97.22
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	97.22
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.21
PRK06762	166	hypothetical protein; Provisional	97.21
PF06431	417	Polyoma_lg_T_C: Polyomavirus large T antigen C-ter	97.21
KOG3354	191	consensus Gluconate kinase [Carbohydrate transport	97.2
PRK09354	349	recA recombinase A; Provisional	97.2
PRK00300	205	gmk guanylate kinase; Provisional	97.19
PRK13764	602	ATPase; Provisional	97.19
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.18
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	97.18
COG1855	604	ATPase (PilT family) [General function prediction	97.18
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	97.17
PRK06547	172	hypothetical protein; Provisional	97.17
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.16
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.15
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.15
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	97.14
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.14
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.14
PRK14528	186	adenylate kinase; Provisional	97.13
PRK02496	184	adk adenylate kinase; Provisional	97.12
TIGR01613	304	primase_Cterm phage/plasmid primase, P4 family, C-	97.12
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	97.12
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.1
TIGR00767	415	rho transcription termination factor Rho. Members	97.1
PRK00409	782	recombination and DNA strand exchange inhibitor pr	97.1
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	97.09
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.08
PF13245	76	AAA_19: Part of AAA domain	97.05
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	97.04
PTZ00088	229	adenylate kinase 1; Provisional	97.04
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.04
PLN02200	234	adenylate kinase family protein	97.03
COG4650	531	RtcR Sigma54-dependent transcription regulator con	97.03
cd01128	249	rho_factor Transcription termination factor rho is	97.02
cd03246	173	ABCC_Protease_Secretion This family represents the	97.02
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.01
COG4133	209	CcmA ABC-type transport system involved in cytochr	97.01
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	97.01
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	97.0
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	97.0
PRK04301	317	radA DNA repair and recombination protein RadA; Va	97.0
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.98
PRK00279	215	adk adenylate kinase; Reviewed	96.98
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.97
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.96
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.94
PRK14527	191	adenylate kinase; Provisional	96.93
PRK04328	249	hypothetical protein; Provisional	96.93
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.93
cd03286	218	ABC_MSH6_euk MutS6 homolog in eukaryotes. The MutS	96.92
TIGR02533	486	type_II_gspE general secretory pathway protein E.	96.92
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.92
PRK04182	180	cytidylate kinase; Provisional	96.92
PF08740	187	BCS1_N: BCS1 N terminal; InterPro: IPR014851 AAA A	96.92
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	96.91
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.91
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.9
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	96.9
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	96.9
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.89
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.88
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.87
PLN02199	303	shikimate kinase	96.87
PRK01184	184	hypothetical protein; Provisional	96.86
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.86
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.85
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	96.85
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.85
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	96.84
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.84
PRK06696	223	uridine kinase; Validated	96.83
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.83
PTZ00202	550	tuzin; Provisional	96.82
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.82
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.82
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.82
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	96.81
PTZ00035	337	Rad51 protein; Provisional	96.8
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	96.79
PHA02530	300	pseT polynucleotide kinase; Provisional	96.78
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	96.77
PRK14526	211	adenylate kinase; Provisional	96.77
PF00488	235	MutS_V: MutS domain V C-terminus.; InterPro: IPR00	96.77
PRK10436	462	hypothetical protein; Provisional	96.76
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.75
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.74
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.72
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.72
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.72
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.71
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	96.7
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.66
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.66
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.66
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.66
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	96.64
PLN02674	244	adenylate kinase	96.63
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.63
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.63
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.63
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	96.61
smart00487	201	DEXDc DEAD-like helicases superfamily.	96.61
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	96.61
PRK13889	988	conjugal transfer relaxase TraA; Provisional	96.61
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	96.6
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.59
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.59
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.59
PRK05541	176	adenylylsulfate kinase; Provisional	96.59
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.58
KOG0477	854	consensus DNA replication licensing factor, MCM2 c	96.58
PRK14529	223	adenylate kinase; Provisional	96.56
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	96.56
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.56
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	96.55
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.54
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.53
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	96.53
PRK00889	175	adenylylsulfate kinase; Provisional	96.52
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	96.52
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.52
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.52
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.51
KOG0482	721	consensus DNA replication licensing factor, MCM7 c	96.46
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	96.46
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	96.45
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.44
PLN02459	261	probable adenylate kinase	96.44
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.43
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.43
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.42
PRK10416	318	signal recognition particle-docking protein FtsY;	96.41
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.41
cd03276	198	ABC_SMC6_euk Eukaryotic SMC6 proteins; SMC protein	96.41
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	96.4
PRK12338	319	hypothetical protein; Provisional	96.39
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	96.38
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	96.37
PRK09825	176	idnK D-gluconate kinase; Provisional	96.37
PRK14021	542	bifunctional shikimate kinase/3-dehydroquinate syn	96.36
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	96.35
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	96.34
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.32
PLN02165	334	adenylate isopentenyltransferase	96.32

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.5e-97  Score=747.14  Aligned_cols=421  Identities=51%  Similarity=0.815  Sum_probs=397.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhhhcCCCCccEEEEecCCCCCccHHHHHHHHHhhccCCccccc
Q 047029           13 TFAASAMLVRTILNEVQTITNQFIPQKLQDILSSKLEGLFGKFSDQLTLIIEQSEGFSVNEIYQAAELYLSTRITPSIQQ   92 (455)
Q Consensus        13 ~~~~~~~S~~a~~~~~~~~~~~~~P~~l~~~i~~~~~~l~~~~~~~~~~~i~e~~~~~~n~~~~a~~~yl~~~~~~~~~~   92 (455)
                      ++|+.+||++|++|++|+|+++++|.+++.|+.+++++|++.+++|.++.|.|++|+.+|++|.|+|.||++++++.+.|
T Consensus         2 ~~~~~~~s~~~~~~~~~~~~~~~~p~~~~~y~~~~~~~l~g~~s~~~~~~~~e~~g~~~n~~~~aie~yl~~k~~~~~~r   81 (457)
T KOG0743|consen    2 SVFTAYASLLGSLMFIKSMLQDIIPPSINPYFISALRGLFGVFSSYALIRIGEQDGVFRNQLYVAIEVYLSSKSSAIAKR   81 (457)
T ss_pred             CccchhHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHhhccCcccEEEEeehhccchHHHHHHHHHHhhhccchhhhhh
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccCCCCceEEEccCCCEEEEeeCCeEEEEEEEEeecCCCCCCCCCCcccccccceeEEEeeCcchhHHHHHhhhhH
Q 047029           93 LRVSQAPREKSLSVTINEGQKVVDTFEGMQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPY  172 (455)
Q Consensus        93 l~~~~~~~~~~~~~~~~~~~~~~d~f~g~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~vl~~yl~~  172 (455)
                      ++.+...+++++++.++++++|.|+|+||+++|++++..++.....      ....++|+|+|+|++++|+.|+++||+|
T Consensus        82 l~~~~~~~s~~~~l~~~~~~~i~d~f~gv~~~w~~~~~~~~~~~~~------~~~~~~r~~~L~f~k~~~e~V~~syl~~  155 (457)
T KOG0743|consen   82 LTQNLSKNSKSLVLGLDDNEEISDEFEGVPVKWRHFVDYNEKWIFV------EREREKRYFELTFHKKPRELVTLSYLPY  155 (457)
T ss_pred             hhhhhccccccceEEecCCcEEEEEEeceEEEEEEEEEecCccccc------ccCCcceEEEEEecCccHHHhHHhHHHH
Confidence            9999999999999999999999999999999999999887765322      1245789999999999999999999999


Q ss_pred             HHHHHHHHHhccceEEEeec-----------CcccccccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCC
Q 047029          173 VAERSKAIKETKKVIKLYSL-----------CAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWK  241 (455)
Q Consensus       173 v~~~~~~~~~~~~~~~~~~~-----------~~w~~~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~  241 (455)
                      +.+.+++|..+++.+++|++           +.|+++.|+||+||++|+|++++|++|++||..|++++++|+++|++|+
T Consensus       156 v~~~~k~I~~~~r~~kl~t~~~~~~~~~~~~~~W~~v~f~HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawK  235 (457)
T KOG0743|consen  156 VVSKAKEILEENRELKLYTNSGKTVIYTAKGGEWRSVGFPHPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWK  235 (457)
T ss_pred             HHHHHHHHHHHHHHHHHhhcCCCcccccccCCcceecCCCCCCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchh
Confidence            99999999999999999877           3799999999999999999999999999999999999999999999999


Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCC--
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDEN--  319 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~--  319 (455)
                      |||||||||||||||+++||||+|++++|+++++++..+++|+++|..+++++||+||||||.+.++.++.....+..  
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n~dLr~LL~~t~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~  315 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLDSDLRHLLLATPNKSILLIEDIDCSFDLRERRKKKKENFEGD  315 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccccCcHHHHHHHHhCCCCcEEEEeecccccccccccccccccccCC
Confidence            999999999999999999999999999999999999999999999999999999999999999998877665433333  


Q ss_pred             cchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccC-CCchHHH
Q 047029          320 NSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKS-HSMFDEI  398 (455)
Q Consensus       320 ~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~-~~l~~ei  398 (455)
                      .+.+++|||||++||+|++||+++||||||||+++|||||+||||||+||+|++|++++++.|+++||+..+ |.++++|
T Consensus       316 ~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~~~h~L~~ei  395 (457)
T KOG0743|consen  316 LSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIEEDHRLFDEI  395 (457)
T ss_pred             cceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcCCCCCcchhHHH
Confidence            467999999999999999999999999999999999999999999999999999999999999999999975 9999999


Q ss_pred             HHhhccccCchh---HHHhccC-CHHHHHHHHHHHHHHhhhhccc
Q 047029          399 EELIKEVEVTPA---EEFMKSE-DADVALNGLVDFLLRKKEQTMK  439 (455)
Q Consensus       399 ~~ll~~~~~tpa---~~l~~~~-~~~~al~~l~~~l~~~~~~~~~  439 (455)
                      ++++.+..+|||   |.+|++. |++.++++|+++|++++.+..+
T Consensus       396 e~l~~~~~~tPA~V~e~lm~~~~dad~~lk~Lv~~l~~~~~~~~~  440 (457)
T KOG0743|consen  396 ERLIEETEVTPAQVAEELMKNKNDADVALKGLVEALESKKEKRNK  440 (457)
T ss_pred             HHHhhcCccCHHHHHHHHhhccccHHHHHHHHHHHHHhhhhhhcc
Confidence            999999999999   8999877 8999999999999998875554

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

Probab=100.00  E-value=1.1e-41  Score=333.26  Aligned_cols=199  Identities=27%  Similarity=0.349  Sum_probs=172.9

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc---
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL---  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~---  277 (455)
                      .+..||++++|.+++.++|.+.++.++.+|+.|.++|+.||+|+|||||||||||.||+|+|++.+..|+.+..+++   
T Consensus       145 ~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVqK  224 (406)
T COG1222         145 KPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQK  224 (406)
T ss_pred             CCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHHH
Confidence            44569999999999999999999999999999999999999999999999999999999999999999999998876   


Q ss_pred             ---CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          278 ---RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       278 ---~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                         ++..-++++|.-+  ..||||||||||++..  .|.....+++.+-++|+-+||+.|||+-..  +++-||++||++
T Consensus       225 YiGEGaRlVRelF~lArekaPsIIFiDEIDAIg~--kR~d~~t~gDrEVQRTmleLL~qlDGFD~~--~nvKVI~ATNR~  300 (406)
T COG1222         225 YIGEGARLVRELFELAREKAPSIIFIDEIDAIGA--KRFDSGTSGDREVQRTMLELLNQLDGFDPR--GNVKVIMATNRP  300 (406)
T ss_pred             HhccchHHHHHHHHHHhhcCCeEEEEechhhhhc--ccccCCCCchHHHHHHHHHHHHhccCCCCC--CCeEEEEecCCc
Confidence               3556677787544  5799999999999976  555555556778899999999999999765  789999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc---CCCchHHHHHhhc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK---SHSMFDEIEELIK  403 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~---~~~l~~ei~~ll~  403 (455)
                      +.|||||+||||||.+|+||+|+.++|.+|++.+....   +...++.+.++.+
T Consensus       301 D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e~la~~~~  354 (406)
T COG1222         301 DILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLARLTE  354 (406)
T ss_pred             cccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCHHHHHHhcC
Confidence            99999999999999999999999999999999887643   2333444444433

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

Probab=100.00  E-value=3e-36  Score=313.96  Aligned_cols=229  Identities=24%  Similarity=0.336  Sum_probs=186.2

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc----
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL----  277 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~----  277 (455)
                      +..+|++++|.+++|++|.+.+..++++|+.|.++|+.+++|||||||||||||++|+|+|++.+.+|+.+...++    
T Consensus       429 p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk~  508 (693)
T KOG0730|consen  429 PNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKY  508 (693)
T ss_pred             CCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHHh
Confidence            3469999999999999999999999999999999999999999999999999999999999999999999987765    


Q ss_pred             --CChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          278 --RSNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       278 --~~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                        +++..++++|..+.  .||||||||||++...+  . +.+  .+...+.+++||+.|||+...  .+++||++||+|+
T Consensus       509 vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R--~-g~~--~~v~~RVlsqLLtEmDG~e~~--k~V~ViAATNRpd  581 (693)
T KOG0730|consen  509 VGESERAIREVFRKARQVAPCIIFFDEIDALAGSR--G-GSS--SGVTDRVLSQLLTEMDGLEAL--KNVLVIAATNRPD  581 (693)
T ss_pred             cCchHHHHHHHHHHHhhcCCeEEehhhHHhHhhcc--C-CCc--cchHHHHHHHHHHHccccccc--CcEEEEeccCChh
Confidence              46788999998775  68999999999987522  2 222  266789999999999999765  6799999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch---------------HHHHHhhccccCchhHHHhccCC
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF---------------DEIEELIKEVEVTPAEEFMKSED  418 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~---------------~ei~~ll~~~~~tpa~~l~~~~~  418 (455)
                      .||+||+||||||..|++|.|+.+.|.+|++.++......-.               .||..+|+++...++++-+.  -
T Consensus       582 ~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~La~~T~g~SGAel~~lCq~A~~~a~~e~i~--a  659 (693)
T KOG0730|consen  582 MIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEELAQATEGYSGAEIVAVCQEAALLALRESIE--A  659 (693)
T ss_pred             hcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCCCCccccHHHHHHHhccCChHHHHHHHHHHHHHHHHHhcc--c
Confidence            999999999999999999999999999999999876533222               34444454444333322222  2


Q ss_pred             HHHHHHHHHHHHHHhhhhccc
Q 047029          419 ADVALNGLVDFLLRKKEQTMK  439 (455)
Q Consensus       419 ~~~al~~l~~~l~~~~~~~~~  439 (455)
                      .....+.+.++++..+.....
T Consensus       660 ~~i~~~hf~~al~~~r~s~~~  680 (693)
T KOG0730|consen  660 TEITWQHFEEALKAVRPSLTS  680 (693)
T ss_pred             ccccHHHHHHHHHhhcccCCH
Confidence            344556666666666555443

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=9.9e-35  Score=298.85  Aligned_cols=243  Identities=21%  Similarity=0.322  Sum_probs=192.0

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc---
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL---  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~---  277 (455)
                      -+..+|+++++.++++.++...+..++++|+.|+++|+..|.|+|||||||||||.||+|+||+.|.+|+.+...++   
T Consensus       505 VPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlNk  584 (802)
T KOG0733|consen  505 VPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLNK  584 (802)
T ss_pred             cCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHHH
Confidence            34568999999999999999999999999999999999999999999999999999999999999999999987765   


Q ss_pred             ---CChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          278 ---RSNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       278 ---~~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                         +++..++.+|..+.  .||||||||||++.+.++..     ....+.+.+++||..|||+..+  .++.||++||+|
T Consensus       585 YVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~-----~s~~s~RvvNqLLtElDGl~~R--~gV~viaATNRP  657 (802)
T KOG0733|consen  585 YVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDE-----GSSVSSRVVNQLLTELDGLEER--RGVYVIAATNRP  657 (802)
T ss_pred             HhhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCC-----CchhHHHHHHHHHHHhcccccc--cceEEEeecCCC
Confidence               46788999997764  69999999999998733322     1345678999999999999776  569999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCC-----chH--------------HHHHhhccccCchhHHH
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHS-----MFD--------------EIEELIKEVEVTPAEEF  413 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~-----l~~--------------ei~~ll~~~~~tpa~~l  413 (455)
                      |.+|||++||||||..++++.|+.++|..|++........+     .++              ++..|++++.+.+.++-
T Consensus       658 DiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~~~c~gftGADLaaLvreAsi~AL~~~  737 (802)
T KOG0733|consen  658 DIIDPAILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARNTKCEGFTGADLAALVREASILALRES  737 (802)
T ss_pred             cccchhhcCCCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhcccccCCchhhHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999988743222     223              44445555444444222


Q ss_pred             hc---cCCHHHHH---------HHHHHHHHHhhhhccccchhhhhhhhh
Q 047029          414 MK---SEDADVAL---------NGLVDFLLRKKEQTMKCNEEENESLKN  450 (455)
Q Consensus       414 ~~---~~~~~~al---------~~l~~~l~~~~~~~~~~~~~~~~~~k~  450 (455)
                      +.   ....+.++         ..+.+++++.+....++.++....+++
T Consensus       738 ~~~~~~~~~~~~~~~~~~~~t~~hF~eA~~~i~pSv~~~dr~~Yd~l~k  786 (802)
T KOG0733|consen  738 LFEIDSSEDDVTVRSSTIIVTYKHFEEAFQRIRPSVSERDRKKYDRLNK  786 (802)
T ss_pred             HhhccccCcccceeeeeeeecHHHHHHHHHhcCCCccHHHHHHHHHHhh
Confidence            21   11122222         356677777776666655555555543

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=7.2e-35  Score=273.04  Aligned_cols=222  Identities=24%  Similarity=0.333  Sum_probs=185.3

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc---
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL---  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~---  277 (455)
                      .+..++.+++|.+-+|++|.+.++.++.+.+.|+++|+.||||+|||||||||||+|++|+|+.....|+.+..+++   
T Consensus       149 kpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefvqk  228 (408)
T KOG0727|consen  149 KPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQK  228 (408)
T ss_pred             CCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHHHH
Confidence            34458999999999999999999999999999999999999999999999999999999999999999999988875   


Q ss_pred             ---CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          278 ---RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       278 ---~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                         ++...++..|.-+  ..|+||||||||++..  +|...+.+.+.+-++.+-+|||.|||+-..  .++-||++||+.
T Consensus       229 ylgegprmvrdvfrlakenapsiifideidaiat--krfdaqtgadrevqril~ellnqmdgfdq~--~nvkvimatnra  304 (408)
T KOG0727|consen  229 YLGEGPRMVRDVFRLAKENAPSIIFIDEIDAIAT--KRFDAQTGADREVQRILIELLNQMDGFDQT--TNVKVIMATNRA  304 (408)
T ss_pred             HhccCcHHHHHHHHHHhccCCcEEEeehhhhHhh--hhccccccccHHHHHHHHHHHHhccCcCcc--cceEEEEecCcc
Confidence               4566778887544  5799999999999865  666666666777889999999999999665  679999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc---------------CCCchHHHHHhhccccCchh---HHHh
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK---------------SHSMFDEIEELIKEVEVTPA---EEFM  414 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~---------------~~~l~~ei~~ll~~~~~tpa---~~l~  414 (455)
                      +.|||||+||||+|.+|+||+|+..+++-++.......               +.....+|..+|.++.+.+.   ++++
T Consensus       305 dtldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls~~vdle~~v~rpdkis~adi~aicqeagm~avr~nryvv  384 (408)
T KOG0727|consen  305 DTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVDLEDLVARPDKISGADINAICQEAGMLAVRENRYVV  384 (408)
T ss_pred             cccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCCcccCHHHHhcCccccchhhHHHHHHHHhHHHHHhcceee
Confidence            99999999999999999999999999988887665432               11223577777777766665   4455


Q ss_pred             ccCCHHHHHHHH
Q 047029          415 KSEDADVALNGL  426 (455)
Q Consensus       415 ~~~~~~~al~~l  426 (455)
                      -..|.+.+....
T Consensus       385 l~kd~e~ay~~~  396 (408)
T KOG0727|consen  385 LQKDFEKAYKTV  396 (408)
T ss_pred             eHHHHHHHHHhh
Confidence            555666666544

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=8.3e-35  Score=295.40  Aligned_cols=179  Identities=30%  Similarity=0.422  Sum_probs=159.9

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc------
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL------  277 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~------  277 (455)
                      .+|+++-|.++.|+++.+.++ |++.|..|.++|-.-|+|+||.||||||||.||+|+|.+.+.+|+....+++      
T Consensus       301 v~F~dVkG~DEAK~ELeEiVe-fLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~VG  379 (752)
T KOG0734|consen  301 VTFEDVKGVDEAKQELEEIVE-FLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVG  379 (752)
T ss_pred             cccccccChHHHHHHHHHHHH-HhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhhc
Confidence            479999999999999987665 9999999999999999999999999999999999999999999999988876      


Q ss_pred             CChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCC
Q 047029          278 RSNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERL  355 (455)
Q Consensus       278 ~~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~L  355 (455)
                      .+...++.+|..++  .||||||||||++...+..  .   +....++++++||..|||+..+  +++|||++||.|+.|
T Consensus       380 vGArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~--~---~~~y~kqTlNQLLvEmDGF~qN--eGiIvigATNfpe~L  452 (752)
T KOG0734|consen  380 VGARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNP--S---DQHYAKQTLNQLLVEMDGFKQN--EGIIVIGATNFPEAL  452 (752)
T ss_pred             ccHHHHHHHHHHHHhcCCeEEEEechhhhcccCCc--c---HHHHHHHHHHHHHHHhcCcCcC--CceEEEeccCChhhh
Confidence            36789999997764  6999999999998652211  1   1225678999999999999776  679999999999999


Q ss_pred             CccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          356 DPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       356 d~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      |+||.||||||+||.+|.|+...|.+|++.|+..-
T Consensus       453 D~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki  487 (752)
T KOG0734|consen  453 DKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKI  487 (752)
T ss_pred             hHHhcCCCccceeEecCCCCcccHHHHHHHHHhcC
Confidence            99999999999999999999999999999999864

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=9.4e-34  Score=303.15  Aligned_cols=227  Identities=27%  Similarity=0.373  Sum_probs=187.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc---
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL---  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~---  277 (455)
                      +.+.+|++++|.++.|++|.+.++ |+++|+.|.++|...|+|+||.||||||||.||+|+|.+.|.+|+.++.+++   
T Consensus       305 ~t~V~FkDVAG~deAK~El~E~V~-fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~  383 (774)
T KOG0731|consen  305 NTGVKFKDVAGVDEAKEELMEFVK-FLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEM  383 (774)
T ss_pred             CCCCccccccCcHHHHHHHHHHHH-HhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHH
Confidence            344789999999999999999886 9999999999999999999999999999999999999999999999998875   


Q ss_pred             ---CChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          278 ---RSNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       278 ---~~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                         ...+.++.+|....  .|||+||||||++...+. .......+.+...++++||..|||+.+.  .++|++++||++
T Consensus       384 ~~g~~asrvr~lf~~ar~~aP~iifideida~~~~r~-G~~~~~~~~e~e~tlnQll~emDgf~~~--~~vi~~a~tnr~  460 (774)
T KOG0731|consen  384 FVGVGASRVRDLFPLARKNAPSIIFIDEIDAVGRKRG-GKGTGGGQDEREQTLNQLLVEMDGFETS--KGVIVLAATNRP  460 (774)
T ss_pred             hcccchHHHHHHHHHhhccCCeEEEeccccccccccc-ccccCCCChHHHHHHHHHHHHhcCCcCC--CcEEEEeccCCc
Confidence               34788999997765  699999999999865322 1123345567789999999999999776  679999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCC----------------chHHHHHhhccccCchh---HHH
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHS----------------MFDEIEELIKEVEVTPA---EEF  413 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~----------------l~~ei~~ll~~~~~tpa---~~l  413 (455)
                      +.||+||+||||||.+|+++.|+...|..|++.++......                ...+|..++.++++.++   ..-
T Consensus       461 d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~neaa~~a~r~~~~~  540 (774)
T KOG0731|consen  461 DILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCNEAALLAARKGLRE  540 (774)
T ss_pred             cccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhhHHHHHHHHhccCc
Confidence            99999999999999999999999999999999998754221                12456666666665555   223


Q ss_pred             hccCCHHHHHHHHHHHHH
Q 047029          414 MKSEDADVALNGLVDFLL  431 (455)
Q Consensus       414 ~~~~~~~~al~~l~~~l~  431 (455)
                      +...+.+.|++.++..++
T Consensus       541 i~~~~~~~a~~Rvi~G~~  558 (774)
T KOG0731|consen  541 IGTKDLEYAIERVIAGME  558 (774)
T ss_pred             cchhhHHHHHHHHhcccc
Confidence            345677777777776664

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=6e-34  Score=271.41  Aligned_cols=222  Identities=26%  Similarity=0.306  Sum_probs=180.9

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc---
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL---  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~---  277 (455)
                      .+..+|.+++|.+.+.++|.+.++.++.+|++|..+|+.+|+|++|||+||||||.||+|+||.....|+.+-.+++   
T Consensus       179 aP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQk  258 (440)
T KOG0726|consen  179 APQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQK  258 (440)
T ss_pred             CchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHH
Confidence            34568999999999999999999999999999999999999999999999999999999999999999888877665   


Q ss_pred             ---CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          278 ---RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       278 ---~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                         .+..-++++|.-+  ..|+|+||||||++..  .|-...+++..+-++++-+|||.+||+-++  +.+-||++||..
T Consensus       259 ylGdGpklvRqlF~vA~e~apSIvFiDEIdAiGt--KRyds~SggerEiQrtmLELLNQldGFdsr--gDvKvimATnri  334 (440)
T KOG0726|consen  259 YLGDGPKLVRELFRVAEEHAPSIVFIDEIDAIGT--KRYDSNSGGEREIQRTMLELLNQLDGFDSR--GDVKVIMATNRI  334 (440)
T ss_pred             HhccchHHHHHHHHHHHhcCCceEEeehhhhhcc--ccccCCCccHHHHHHHHHHHHHhccCcccc--CCeEEEEecccc
Confidence               2456667777544  5799999999999865  444555556677889999999999999775  789999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc---------------CCCchHHHHHhhccccCchh-HHHh--
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK---------------SHSMFDEIEELIKEVEVTPA-EEFM--  414 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~---------------~~~l~~ei~~ll~~~~~tpa-~~l~--  414 (455)
                      +.|||||+||||+|.+|+|+.|+...++.||..+-...               +.-...+|.++|.++.+.+. +.-|  
T Consensus       335 e~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs~Mtl~~dVnle~li~~kddlSGAdIkAictEaGllAlRerRm~v  414 (440)
T KOG0726|consen  335 ETLDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTSRMTLAEDVNLEELIMTKDDLSGADIKAICTEAGLLALRERRMKV  414 (440)
T ss_pred             cccCHhhcCCCccccccccCCCchhhhceeEEEeecccchhccccHHHHhhcccccccccHHHHHHHHhHHHHHHHHhhc
Confidence            99999999999999999999999999998887554321               22234577777777666555 2222  


Q ss_pred             ccCCHHHHHHHH
Q 047029          415 KSEDADVALNGL  426 (455)
Q Consensus       415 ~~~~~~~al~~l  426 (455)
                      ..+|+..|.+.+
T Consensus       415 t~~DF~ka~e~V  426 (440)
T KOG0726|consen  415 TMEDFKKAKEKV  426 (440)
T ss_pred             cHHHHHHHHHHH
Confidence            345555555544

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.6e-33  Score=286.58  Aligned_cols=198  Identities=25%  Similarity=0.345  Sum_probs=167.4

Q ss_pred             cccCC-CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc
Q 047029          198 INLDH-PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS  276 (455)
Q Consensus       198 ~~~~~-p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~  276 (455)
                      ..+++ ...|.+++|.+....++.+.+.. +++|+.|..+|+.|+||+|||||||||||+||+|+|++++.+++.+...+
T Consensus       180 ~~~~~snv~f~diGG~d~~~~el~~li~~-i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApe  258 (802)
T KOG0733|consen  180 LEFPESNVSFSDIGGLDKTLAELCELIIH-IKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPE  258 (802)
T ss_pred             cCCCCCCcchhhccChHHHHHHHHHHHHH-hcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchh
Confidence            34444 34799999999999999998875 99999999999999999999999999999999999999999999999877


Q ss_pred             c------CChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc--CCCceEEE
Q 047029          277 L------RSNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS--CGDERIIV  346 (455)
Q Consensus       277 ~------~~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~--~~~~~ivI  346 (455)
                      +      +++..++++|.++.  .|||+||||||++.+.+...     ...-.++.+++||+.||++...  .|..++||
T Consensus       259 ivSGvSGESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~a-----qreMErRiVaQLlt~mD~l~~~~~~g~~VlVI  333 (802)
T KOG0733|consen  259 IVSGVSGESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEA-----QREMERRIVAQLLTSMDELSNEKTKGDPVLVI  333 (802)
T ss_pred             hhcccCcccHHHHHHHHHHHhccCCeEEEeecccccccchhhH-----HHHHHHHHHHHHHHhhhcccccccCCCCeEEE
Confidence            6      46789999998875  69999999999997633221     1223568899999999998654  35779999


Q ss_pred             EEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCC---chHHHHHh
Q 047029          347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHS---MFDEIEEL  401 (455)
Q Consensus       347 ~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~---l~~ei~~l  401 (455)
                      ++||+||.|||||+|+||||..|.+..|+..+|..|++..+....+.   .+..|+.+
T Consensus       334 gATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~d~~qlA~l  391 (802)
T KOG0733|consen  334 GATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDFDFKQLAKL  391 (802)
T ss_pred             ecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCcCHHHHHhc
Confidence            99999999999999999999999999999999999999988754333   33444444

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=6.8e-33  Score=291.44  Aligned_cols=197  Identities=25%  Similarity=0.379  Sum_probs=166.0

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc-----
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL-----  277 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~-----  277 (455)
                      ..+||+++|.+++|.+|++.+..++++|+.|.. |...+.|+|||||||||||.+|+|+|.++...|+.+...++     
T Consensus       668 nV~WdDVGGLeevK~eIldTIqlPL~hpeLfss-glrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMYV  746 (953)
T KOG0736|consen  668 NVSWDDVGGLEEVKTEILDTIQLPLKHPELFSS-GLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYV  746 (953)
T ss_pred             ccchhcccCHHHHHHHHHHHhcCcccChhhhhc-cccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHHh
Confidence            358999999999999999999999999998876 77778899999999999999999999999999999987775     


Q ss_pred             -CChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC
Q 047029          278 -RSNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER  354 (455)
Q Consensus       278 -~~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~  354 (455)
                       +++.++|+.|.++.  +|||||+||+|.+.+.+++.++++   +.-.+.+|+||..|||+.......++||++||+||.
T Consensus       747 GqSE~NVR~VFerAR~A~PCVIFFDELDSlAP~RG~sGDSG---GVMDRVVSQLLAELDgls~~~s~~VFViGATNRPDL  823 (953)
T KOG0736|consen  747 GQSEENVREVFERARSAAPCVIFFDELDSLAPNRGRSGDSG---GVMDRVVSQLLAELDGLSDSSSQDVFVIGATNRPDL  823 (953)
T ss_pred             cchHHHHHHHHHHhhccCCeEEEeccccccCccCCCCCCcc---ccHHHHHHHHHHHhhcccCCCCCceEEEecCCCccc
Confidence             57899999998775  699999999999998766655443   566789999999999998766688999999999999


Q ss_pred             CCccccCCCceeEEEEeCCCCHHH-HHHHHHHh---hcccCCCchHHHHHhhc
Q 047029          355 LDPALLRPGRMDMHIHMSYLTPGG-FKILAFNY---LKIKSHSMFDEIEELIK  403 (455)
Q Consensus       355 Ld~allRpGR~d~~I~~~~p~~~~-~~~L~~~~---l~~~~~~l~~ei~~ll~  403 (455)
                      |||||+||||||.-++++.++..+ +..+++..   +..+......+|++.|.
T Consensus       824 LDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrkFkLdedVdL~eiAk~cp  876 (953)
T KOG0736|consen  824 LDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRKFKLDEDVDLVEIAKKCP  876 (953)
T ss_pred             cChhhcCCCccceeEEecCCccHHHHHHHHHHHHHHccCCCCcCHHHHHhhCC
Confidence            999999999999999999987665 33444432   23334444556666654

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=6.3e-33  Score=259.76  Aligned_cols=183  Identities=28%  Similarity=0.386  Sum_probs=161.3

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc----
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL----  277 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~----  277 (455)
                      +.++++-++|.+.+.++|.+-++.+.++|+.|..+|++.|+|+|||||||||||.||+|+|.+..+.++.++.+++    
T Consensus       142 PDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgselvqk~  221 (404)
T KOG0728|consen  142 PDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQKY  221 (404)
T ss_pred             CccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHHHHH
Confidence            4468999999999999999999999999999999999999999999999999999999999999999999998876    


Q ss_pred             --CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          278 --RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       278 --~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                        ++..-++++|.-+  ..|+|||+||||++..  .|..+.++++.+-++++-+|||.+||+...  .++-||++||+.+
T Consensus       222 igegsrmvrelfvmarehapsiifmdeidsigs--~r~e~~~ggdsevqrtmlellnqldgfeat--knikvimatnrid  297 (404)
T KOG0728|consen  222 IGEGSRMVRELFVMAREHAPSIIFMDEIDSIGS--SRVESGSGGDSEVQRTMLELLNQLDGFEAT--KNIKVIMATNRID  297 (404)
T ss_pred             hhhhHHHHHHHHHHHHhcCCceEeeeccccccc--ccccCCCCccHHHHHHHHHHHHhccccccc--cceEEEEeccccc
Confidence              3445677777444  4799999999999876  333344445667789999999999999765  6789999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      .|||||+||||+|.+|+||+|+.++|.+|++.+-.
T Consensus       298 ild~allrpgridrkiefp~p~e~ar~~ilkihsr  332 (404)
T KOG0728|consen  298 ILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSR  332 (404)
T ss_pred             cccHhhcCCCcccccccCCCCCHHHHHHHHHHhhh
Confidence            99999999999999999999999999999987654

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=99.97  E-value=2.1e-31  Score=274.04  Aligned_cols=186  Identities=26%  Similarity=0.363  Sum_probs=157.8

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc---
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL---  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~---  277 (455)
                      .+..+|++|+|.+.+|++|.+.+..++.+++.|.++|+.+++|+|||||||||||++++++|++++.+++.+..+.+   
T Consensus       139 ~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~k  218 (398)
T PTZ00454        139 KPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQK  218 (398)
T ss_pred             CCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHHH
Confidence            45578999999999999999999999999999999999999999999999999999999999999999999877654   


Q ss_pred             ---CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          278 ---RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       278 ---~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                         .+...++++|..+  ..|+||||||||.++..  +.....+.+...+..+.++++.+|++...  .+++||+|||++
T Consensus       219 ~~ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~--r~~~~~~~d~~~~r~l~~LL~~ld~~~~~--~~v~VI~aTN~~  294 (398)
T PTZ00454        219 YLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATK--RFDAQTGADREVQRILLELLNQMDGFDQT--TNVKVIMATNRA  294 (398)
T ss_pred             hcchhHHHHHHHHHHHHhcCCeEEEEECHhhhccc--cccccCCccHHHHHHHHHHHHHhhccCCC--CCEEEEEecCCc
Confidence               2345567777544  57999999999998752  22222222234456788999999998654  568999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      +.||||++||||||.+|++++|+.++|..|++.++...
T Consensus       295 d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~  332 (398)
T PTZ00454        295 DTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKM  332 (398)
T ss_pred             hhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999888654

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=2.3e-31  Score=250.50  Aligned_cols=229  Identities=21%  Similarity=0.288  Sum_probs=180.2

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc---
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL---  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~---  277 (455)
                      .+..++++++|.+.+.+++++.+..++.+++.|..+|+.+|+|+|+|||||||||.+|+|.|...+..|..+-..++   
T Consensus       165 kPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLVQM  244 (424)
T KOG0652|consen  165 KPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLVQM  244 (424)
T ss_pred             CCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHHhh
Confidence            44568999999999999999999999999999999999999999999999999999999999999888776655543   


Q ss_pred             ---CChHHHHHHHHh--hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          278 ---RSNSDLRRLLVS--TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       278 ---~~~~~l~~ll~~--~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                         .+..-++..|.-  .+.|+||||||+|++..  +|..+...++.+-++++-+|||.+||+.+.  +.+-||++||+.
T Consensus       245 fIGdGAkLVRDAFaLAKEkaP~IIFIDElDAIGt--KRfDSek~GDREVQRTMLELLNQLDGFss~--~~vKviAATNRv  320 (424)
T KOG0652|consen  245 FIGDGAKLVRDAFALAKEKAPTIIFIDELDAIGT--KRFDSEKAGDREVQRTMLELLNQLDGFSSD--DRVKVIAATNRV  320 (424)
T ss_pred             hhcchHHHHHHHHHHhhccCCeEEEEechhhhcc--ccccccccccHHHHHHHHHHHHhhcCCCCc--cceEEEeecccc
Confidence               234455666643  45799999999999865  444444445667789999999999999775  778899999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc---cCCCchHHHHHhhcc---ccCchh-----HHHhccCCHHH
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI---KSHSMFDEIEELIKE---VEVTPA-----EEFMKSEDADV  421 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~---~~~~l~~ei~~ll~~---~~~tpa-----~~l~~~~~~~~  421 (455)
                      +.|||||+|.||+|.+|+||.|+.++|..|++.+-..   .+...++|+++-...   ++..+.     .-.+++...+.
T Consensus       321 DiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~DvNfeELaRsTddFNGAQcKAVcVEAGMiALRr~atev  400 (424)
T KOG0652|consen  321 DILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVSDDVNFEELARSTDDFNGAQCKAVCVEAGMIALRRGATEV  400 (424)
T ss_pred             cccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCCCCCCHHHHhhcccccCchhheeeehhhhHHHHhcccccc
Confidence            9999999999999999999999999999998876543   345567777765443   222222     22334554555


Q ss_pred             HHHHHHHHHHHh
Q 047029          422 ALNGLVDFLLRK  433 (455)
Q Consensus       422 al~~l~~~l~~~  433 (455)
                      .-+.+++.+...
T Consensus       401 ~heDfmegI~eV  412 (424)
T KOG0652|consen  401 THEDFMEGILEV  412 (424)
T ss_pred             cHHHHHHHHHHH
Confidence            555555555443

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=1.4e-31  Score=252.60  Aligned_cols=230  Identities=24%  Similarity=0.288  Sum_probs=181.4

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL  277 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~  277 (455)
                      +.-.+..|+.+++|-.++.+.|.+-++.++.+|+.|..+|+.||+|+|||||||||||..|+|+||..+..|+.+-.+++
T Consensus       168 veekpdvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigsel  247 (435)
T KOG0729|consen  168 VEEKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSEL  247 (435)
T ss_pred             eecCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHH
Confidence            34455679999999999999999999999999999999999999999999999999999999999999999999887775


Q ss_pred             ------CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEc
Q 047029          278 ------RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT  349 (455)
Q Consensus       278 ------~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TT  349 (455)
                            ++..-++++|.-+  ++-||||+||||++..  .|.....+++++-++++-+|++.+||+-.+  +++-|.++|
T Consensus       248 vqkyvgegarmvrelf~martkkaciiffdeidaigg--arfddg~ggdnevqrtmleli~qldgfdpr--gnikvlmat  323 (435)
T KOG0729|consen  248 VQKYVGEGARMVRELFEMARTKKACIIFFDEIDAIGG--ARFDDGAGGDNEVQRTMLELINQLDGFDPR--GNIKVLMAT  323 (435)
T ss_pred             HHHHhhhhHHHHHHHHHHhcccceEEEEeeccccccC--ccccCCCCCcHHHHHHHHHHHHhccCCCCC--CCeEEEeec
Confidence                  3456677777443  4679999999999865  344444455677789999999999999665  789999999


Q ss_pred             CCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc---CCCchH------------HHHHhhccccCchh---H
Q 047029          350 NYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK---SHSMFD------------EIEELIKEVEVTPA---E  411 (455)
Q Consensus       350 N~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~---~~~l~~------------ei~~ll~~~~~tpa---~  411 (455)
                      |+|+.|||||+||||+|.+++|+.|+.+.|..|++.+....   ...-++            +|...|.++.+.+.   +
T Consensus       324 nrpdtldpallrpgrldrkvef~lpdlegrt~i~kihaksmsverdir~ellarlcpnstgaeirsvcteagmfairarr  403 (435)
T KOG0729|consen  324 NRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARR  403 (435)
T ss_pred             CCCCCcCHhhcCCcccccceeccCCcccccceeEEEeccccccccchhHHHHHhhCCCCcchHHHHHHHHhhHHHHHHHh
Confidence            99999999999999999999999999999988887654432   112233            44444444444333   2


Q ss_pred             HHhccCCHHHHHHHHHHHHH
Q 047029          412 EFMKSEDADVALNGLVDFLL  431 (455)
Q Consensus       412 ~l~~~~~~~~al~~l~~~l~  431 (455)
                      ......|+-.|++.+++..+
T Consensus       404 k~atekdfl~av~kvvkgy~  423 (435)
T KOG0729|consen  404 KVATEKDFLDAVNKVVKGYA  423 (435)
T ss_pred             hhhhHHHHHHHHHHHHHHHH
Confidence            23334556666666665544

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=2.9e-31  Score=279.79  Aligned_cols=229  Identities=28%  Similarity=0.375  Sum_probs=189.1

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc----
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL----  277 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~----  277 (455)
                      ...+|++++|.++.|+++.+.++ |++.|..|..+|..-|+|+||+||||||||.||+|+|.+.+.+++.++.++.    
T Consensus       145 ~~v~F~DVAG~dEakeel~EiVd-fLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemf  223 (596)
T COG0465         145 VKVTFADVAGVDEAKEELSELVD-FLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF  223 (596)
T ss_pred             cCcChhhhcCcHHHHHHHHHHHH-HHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhh
Confidence            34689999999999999998775 9999999999999999999999999999999999999999999999998875    


Q ss_pred             --CChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          278 --RSNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       278 --~~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                        .+.+.+|.+|.++.  .||||||||||++..  .|..+.++.+.+..+++++||..|||...+  .+++|+++||+|+
T Consensus       224 VGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr--~Rg~g~GggnderEQTLNQlLvEmDGF~~~--~gviviaaTNRpd  299 (596)
T COG0465         224 VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGR--QRGAGLGGGNDEREQTLNQLLVEMDGFGGN--EGVIVIAATNRPD  299 (596)
T ss_pred             cCCCcHHHHHHHHHhhccCCCeEEEehhhhccc--ccCCCCCCCchHHHHHHHHHHhhhccCCCC--CceEEEecCCCcc
Confidence              36799999998876  499999999999865  333334555667788999999999999754  6799999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCC---c------------hHHHHHhhccccCchh---HHHhc
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHS---M------------FDEIEELIKEVEVTPA---EEFMK  415 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~---l------------~~ei~~ll~~~~~tpa---~~l~~  415 (455)
                      -|||||+||||||.+|.++.|+...|+++++-+.......   .            ..+++.++.++.+..+   ...+.
T Consensus       300 VlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl~~iAr~tpGfsGAdL~nl~NEAal~aar~n~~~i~  379 (596)
T COG0465         300 VLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSGADLANLLNEAALLAARRNKKEIT  379 (596)
T ss_pred             cchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCHHHHhhhCCCcccchHhhhHHHHHHHHHHhcCeeEe
Confidence            9999999999999999999999999999999776543221   1            1345555555554444   22334


Q ss_pred             cCCHHHHHHHHHHHHHHhhh
Q 047029          416 SEDADVALNGLVDFLLRKKE  435 (455)
Q Consensus       416 ~~~~~~al~~l~~~l~~~~~  435 (455)
                      ..+.+.|.+.++-..+++-+
T Consensus       380 ~~~i~ea~drv~~G~erks~  399 (596)
T COG0465         380 MRDIEEAIDRVIAGPERKSR  399 (596)
T ss_pred             ccchHHHHHHHhcCcCcCCc
Confidence            56788888888877776544

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

Probab=99.97  E-value=1.1e-30  Score=257.66  Aligned_cols=243  Identities=22%  Similarity=0.302  Sum_probs=189.0

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC-----
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR-----  278 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~-----  278 (455)
                      ..|++|+|..+.|+-|.+.+-.++.-|++|+.+-.|| +|+|++||||||||+||+|+|.+.+..|+.+..+.+.     
T Consensus       209 ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPW-kgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltSKwRG  287 (491)
T KOG0738|consen  209 IKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPW-KGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKWRG  287 (491)
T ss_pred             cChHhhcchHHHHHHHHHHHhhhhhhHHHHhhccccc-ceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhhhhcc
Confidence            5789999999999999999999999999999877666 5999999999999999999999999999999887763     


Q ss_pred             ChHHHHHHHHhh---CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCC--ceEEEEEcCCCC
Q 047029          279 SNSDLRRLLVST---GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGD--ERIIVFTTNYKE  353 (455)
Q Consensus       279 ~~~~l~~ll~~~---~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~--~~ivI~TTN~~~  353 (455)
                      ....+.++|.++   ..|++|||||||.+..   +++. +++...+++.-++||..|||+......  -++|+++||.|+
T Consensus       288 eSEKlvRlLFemARfyAPStIFiDEIDslcs---~RG~-s~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmVLAATN~PW  363 (491)
T KOG0738|consen  288 ESEKLVRLLFEMARFYAPSTIFIDEIDSLCS---QRGG-SSEHEASRRVKSELLVQMDGVQGTLENSKVVMVLAATNFPW  363 (491)
T ss_pred             chHHHHHHHHHHHHHhCCceeehhhHHHHHh---cCCC-ccchhHHHHHHHHHHHHhhccccccccceeEEEEeccCCCc
Confidence            235566666555   3799999999999865   2222 234556778889999999998655322  167778999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc---------------CCCchHHHHHhhccccCchhH-------
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK---------------SHSMFDEIEELIKEVEVTPAE-------  411 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~---------------~~~l~~ei~~ll~~~~~tpa~-------  411 (455)
                      .||+||+|  ||...|++|.|+.++|+.|++..|+..               .+...++|..+|+++.+.+.+       
T Consensus       364 diDEAlrR--RlEKRIyIPLP~~~~R~~Li~~~l~~~~~~~~~~~~~lae~~eGySGaDI~nvCreAsm~~mRR~i~g~~  441 (491)
T KOG0738|consen  364 DIDEALRR--RLEKRIYIPLPDAEARSALIKILLRSVELDDPVNLEDLAERSEGYSGADITNVCREASMMAMRRKIAGLT  441 (491)
T ss_pred             chHHHHHH--HHhhheeeeCCCHHHHHHHHHHhhccccCCCCccHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHhcCC
Confidence            99999999  999999999999999999999988743               223345777777776665552       


Q ss_pred             ----HHhccCCHH--HHHHHHHHHHHHhhhhccccchhhhhhhhhhcc
Q 047029          412 ----EFMKSEDAD--VALNGLVDFLLRKKEQTMKCNEEENESLKNEED  453 (455)
Q Consensus       412 ----~l~~~~~~~--~al~~l~~~l~~~~~~~~~~~~~~~~~~k~~~~  453 (455)
                          ..+..+.++  +...++.+++.+.++......-+..|.+-.++|
T Consensus       442 ~~ei~~lakE~~~~pv~~~Dfe~Al~~v~pSvs~~d~~k~ekW~~efG  489 (491)
T KOG0738|consen  442 PREIRQLAKEEPKMPVTNEDFEEALRKVRPSVSAADLEKYEKWMDEFG  489 (491)
T ss_pred             cHHhhhhhhhccccccchhhHHHHHHHcCcCCCHHHHHHHHHHHHHhc
Confidence                122334444  666777778877777666545556666655554

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.97  E-value=4.4e-30  Score=269.64  Aligned_cols=183  Identities=24%  Similarity=0.383  Sum_probs=150.1

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc----------EE
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD----------IY  270 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~----------v~  270 (455)
                      .++.+|++|+|.+.++++|.+.+..++.+++.|+.+|+++++|+|||||||||||++++++|++++.+          ++
T Consensus       176 ~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl  255 (512)
T TIGR03689       176 VPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFL  255 (512)
T ss_pred             CCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEE
Confidence            34578999999999999999999999999999999999999999999999999999999999999765          22


Q ss_pred             EEecccc------CChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc
Q 047029          271 DMELASL------RSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS  338 (455)
Q Consensus       271 ~l~~~~~------~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~  338 (455)
                      .+..+.+      .+...++.+|..+      ..|+||||||+|.++..+  ..+.  ........+++||+.|||+.+.
T Consensus       256 ~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R--~~~~--s~d~e~~il~~LL~~LDgl~~~  331 (512)
T TIGR03689       256 NIKGPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTR--GSGV--SSDVETTVVPQLLSELDGVESL  331 (512)
T ss_pred             eccchhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhccc--CCCc--cchHHHHHHHHHHHHhcccccC
Confidence            2322222      1234566666443      258999999999997522  1111  1122356778999999999764


Q ss_pred             CCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          339 CGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       339 ~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                        ++++||+|||+++.||||++||||||.+|+|++|+.+++++|+++|+..
T Consensus       332 --~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~  380 (512)
T TIGR03689       332 --DNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD  380 (512)
T ss_pred             --CceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc
Confidence              5799999999999999999999999999999999999999999999864

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.97  E-value=2.1e-29  Score=259.64  Aligned_cols=232  Identities=24%  Similarity=0.328  Sum_probs=177.1

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      .+..+|++++|.++++++|.+.+..++.+++.|+.+|+.+++|+|||||||||||++|+++|++++.+++.+.++.+.  
T Consensus       125 ~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~  204 (389)
T PRK03992        125 SPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQK  204 (389)
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHh
Confidence            345689999999999999999999999999999999999999999999999999999999999999999999887752  


Q ss_pred             ----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          +...++.+|...  ..|+||||||||.++..  +.......+...+.++..+++.+|+....  .+++||+|||++
T Consensus       205 ~~g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~--r~~~~~~~~~~~~~~l~~lL~~ld~~~~~--~~v~VI~aTn~~  280 (389)
T PRK03992        205 FIGEGARLVRELFELAREKAPSIIFIDEIDAIAAK--RTDSGTSGDREVQRTLMQLLAEMDGFDPR--GNVKIIAATNRI  280 (389)
T ss_pred             hccchHHHHHHHHHHHHhcCCeEEEEechhhhhcc--cccCCCCccHHHHHHHHHHHHhccccCCC--CCEEEEEecCCh
Confidence                335566676554  46899999999998752  22222222234456778899999987543  568999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCC---CchHHHHHhhccccCchh--HHH--------hccCCH
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSH---SMFDEIEELIKEVEVTPA--EEF--------MKSEDA  419 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~---~l~~ei~~ll~~~~~tpa--~~l--------~~~~~~  419 (455)
                      +.+|+|++||||||..|+++.|+.++|.+|++.++.....   ....++.....+  ++++  ..+        +++...
T Consensus       281 ~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~~~~la~~t~g--~sgadl~~l~~eA~~~a~~~~~~  358 (389)
T PRK03992        281 DILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEG--ASGADLKAICTEAGMFAIRDDRT  358 (389)
T ss_pred             hhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCCHHHHHHHcCC--CCHHHHHHHHHHHHHHHHHcCCC
Confidence            9999999999999999999999999999999999865422   223444444332  4444  111        223333


Q ss_pred             HHHHHHHHHHHHHhhhhcc
Q 047029          420 DVALNGLVDFLLRKKEQTM  438 (455)
Q Consensus       420 ~~al~~l~~~l~~~~~~~~  438 (455)
                      ....+.+.++++..+....
T Consensus       359 ~i~~~d~~~A~~~~~~~~~  377 (389)
T PRK03992        359 EVTMEDFLKAIEKVMGKEE  377 (389)
T ss_pred             CcCHHHHHHHHHHHhcccc
Confidence            3556666666666554433

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.96  E-value=4.6e-29  Score=276.44  Aligned_cols=244  Identities=23%  Similarity=0.341  Sum_probs=185.8

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc-----
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL-----  277 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~-----  277 (455)
                      ..+|++++|.+.+|++|.+.+..++.+++.|.++|..+++|+|||||||||||++|+++|++++.+++.+..+++     
T Consensus       449 ~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~v  528 (733)
T TIGR01243       449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWV  528 (733)
T ss_pred             ccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhccc
Confidence            458999999999999999999999999999999999999999999999999999999999999999999988765     


Q ss_pred             -CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC
Q 047029          278 -RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER  354 (455)
Q Consensus       278 -~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~  354 (455)
                       .++..++++|..+  ..|+||||||||.+++.++  ..  .........+++||..|||+...  .+++||+|||+++.
T Consensus       529 Gese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~--~~--~~~~~~~~~~~~lL~~ldg~~~~--~~v~vI~aTn~~~~  602 (733)
T TIGR01243       529 GESEKAIREIFRKARQAAPAIIFFDEIDAIAPARG--AR--FDTSVTDRIVNQLLTEMDGIQEL--SNVVVIAATNRPDI  602 (733)
T ss_pred             CcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCC--CC--CCccHHHHHHHHHHHHhhcccCC--CCEEEEEeCCChhh
Confidence             3456788888665  4689999999999976221  11  11234467889999999998654  57999999999999


Q ss_pred             CCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc---hH------------HHHHhhccccCchhHHHhcc---
Q 047029          355 LDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM---FD------------EIEELIKEVEVTPAEEFMKS---  416 (455)
Q Consensus       355 Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l---~~------------ei~~ll~~~~~tpa~~l~~~---  416 (455)
                      ||||++||||||.+|++++|+.++|.+|++.+........   .+            +|..++.++.+.+....+..   
T Consensus       603 ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~l~~la~~t~g~sgadi~~~~~~A~~~a~~~~~~~~~~  682 (733)
T TIGR01243       603 LDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAK  682 (733)
T ss_pred             CCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHhhhccc
Confidence            9999999999999999999999999999998876442211   22            33333333333222111110   


Q ss_pred             -----------CCHHHHHHHHHHHHHHhhhhccccchhhhhhhhhhc
Q 047029          417 -----------EDADVALNGLVDFLLRKKEQTMKCNEEENESLKNEE  452 (455)
Q Consensus       417 -----------~~~~~al~~l~~~l~~~~~~~~~~~~~~~~~~k~~~  452 (455)
                                 .+.....+.+.+++++.++...+...+..+.+++.+
T Consensus       683 ~~~~~~~~~~~~~~~i~~~~f~~al~~~~ps~~~~~~~~~~~~~~~~  729 (733)
T TIGR01243       683 EKLEVGEEEFLKDLKVEMRHFLEALKKVKPSVSKEDMLRYERLAKEL  729 (733)
T ss_pred             hhhhcccccccccCcccHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence                       012345566777777766665554445666665544

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.

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=99.96  E-value=2.6e-29  Score=260.44  Aligned_cols=187  Identities=27%  Similarity=0.326  Sum_probs=157.5

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC-
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR-  278 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~-  278 (455)
                      ..++.+|++|+|.+.++++|.+.+..++.+++.|..+|+.+++|+|||||||||||++|+++|++++.+++.+..+++. 
T Consensus       176 ~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~  255 (438)
T PTZ00361        176 KAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQ  255 (438)
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhh
Confidence            3456799999999999999999999999999999999999999999999999999999999999999999988877652 


Q ss_pred             -----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCC
Q 047029          279 -----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY  351 (455)
Q Consensus       279 -----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~  351 (455)
                           +...++.+|..+  ..|+||||||||.++.  .+....++.+...+.++..+|+.+||+...  .++.||+|||+
T Consensus       256 k~~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~--kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~--~~V~VI~ATNr  331 (438)
T PTZ00361        256 KYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGT--KRYDATSGGEKEIQRTMLELLNQLDGFDSR--GDVKVIMATNR  331 (438)
T ss_pred             hhcchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhc--cCCCCCCcccHHHHHHHHHHHHHHhhhccc--CCeEEEEecCC
Confidence                 234466666543  4689999999999875  222222222334456778899999998544  56899999999


Q ss_pred             CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          352 KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       352 ~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      ++.||++++||||||.+|+|+.|+.++|.+|++.++...
T Consensus       332 ~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~  370 (438)
T PTZ00361        332 IESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKM  370 (438)
T ss_pred             hHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999988654

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.96  E-value=5.4e-29  Score=264.56  Aligned_cols=186  Identities=29%  Similarity=0.413  Sum_probs=157.5

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc---
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL---  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~---  277 (455)
                      .+..+|++++|.+++|+++.+.+. ++++++.|.+.|..+++|+|||||||||||++++++|++++.+++.++.+.+   
T Consensus        49 ~~~~~~~di~g~~~~k~~l~~~~~-~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~  127 (495)
T TIGR01241        49 KPKVTFKDVAGIDEAKEELMEIVD-FLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEM  127 (495)
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHH-HHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHH
Confidence            345689999999999999987665 7899999999999999999999999999999999999999999999987764   


Q ss_pred             ---CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          278 ---RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       278 ---~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                         .+...++++|..+  ..|+||||||||.+...+  .............++++||+.||++...  ++++||+|||++
T Consensus       128 ~~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r--~~~~~~~~~~~~~~~~~lL~~~d~~~~~--~~v~vI~aTn~~  203 (495)
T TIGR01241       128 FVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQR--GAGLGGGNDEREQTLNQLLVEMDGFGTN--TGVIVIAATNRP  203 (495)
T ss_pred             HhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhcc--ccCcCCccHHHHHHHHHHHhhhccccCC--CCeEEEEecCCh
Confidence               2456788888765  468999999999987522  2111222334457889999999998654  569999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccC
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKS  391 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~  391 (455)
                      +.||||++||||||.+|+++.|+.++|.+|++.++....
T Consensus       204 ~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~  242 (495)
T TIGR01241       204 DVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKK  242 (495)
T ss_pred             hhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCC
Confidence            999999999999999999999999999999999987643

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.96  E-value=1.9e-28  Score=257.33  Aligned_cols=227  Identities=21%  Similarity=0.203  Sum_probs=169.6

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc----
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL----  277 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~----  277 (455)
                      ...+|++|+|.+.+|+.+.+....|.   ..+.+.|+++++|+|||||||||||++|+++|++++.+++.++++.+    
T Consensus       223 ~~~~~~dvgGl~~lK~~l~~~~~~~~---~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~  299 (489)
T CHL00195        223 VNEKISDIGGLDNLKDWLKKRSTSFS---KQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGI  299 (489)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHhh---HHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccc
Confidence            34689999999999999987665553   33567899999999999999999999999999999999999998764    


Q ss_pred             --CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          278 --RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       278 --~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                        .++..++++|..+  ..||||||||||.++....    ...+.+.....+..++..|+..    ..+++||+|||+++
T Consensus       300 vGese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~----~~~d~~~~~rvl~~lL~~l~~~----~~~V~vIaTTN~~~  371 (489)
T CHL00195        300 VGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSE----SKGDSGTTNRVLATFITWLSEK----KSPVFVVATANNID  371 (489)
T ss_pred             cChHHHHHHHHHHHHHhcCCcEEEehhhhhhhcccc----CCCCchHHHHHHHHHHHHHhcC----CCceEEEEecCChh
Confidence              2456788888643  5799999999998865211    1112344566778888888753    35689999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc--hHHHHHhhcc-ccCchh--HHHhc-------cCCHHH
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM--FDEIEELIKE-VEVTPA--EEFMK-------SEDADV  421 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l--~~ei~~ll~~-~~~tpa--~~l~~-------~~~~~~  421 (455)
                      .|||+++||||||..|+++.|+.++|.+|++.++.......  ..++..++.. ..++.|  +.++.       ......
T Consensus       372 ~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~lv~eA~~~A~~~~~~l  451 (489)
T CHL00195        372 LLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFYEKREF  451 (489)
T ss_pred             hCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHHHHHHHHHHHHcCCCc
Confidence            99999999999999999999999999999999997642211  2233334332 235555  33221       122334


Q ss_pred             HHHHHHHHHHHhhhhccc
Q 047029          422 ALNGLVDFLLRKKEQTMK  439 (455)
Q Consensus       422 al~~l~~~l~~~~~~~~~  439 (455)
                      ..+++.++++...+....
T Consensus       452 t~~dl~~a~~~~~Pls~~  469 (489)
T CHL00195        452 TTDDILLALKQFIPLAQT  469 (489)
T ss_pred             CHHHHHHHHHhcCCCccc
Confidence            567788888877776443

>CHL00176 ftsH cell division protein; Validated

Probab=99.96  E-value=2.5e-28  Score=263.83  Aligned_cols=185  Identities=30%  Similarity=0.409  Sum_probs=156.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      ....+|++++|.+++|+++.+.+ .+++.++.|..+|...++|+|||||||||||++|+++|++++.+++.++++.+.  
T Consensus       177 ~~~~~f~dv~G~~~~k~~l~eiv-~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~  255 (638)
T CHL00176        177 DTGITFRDIAGIEEAKEEFEEVV-SFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEM  255 (638)
T ss_pred             CCCCCHHhccChHHHHHHHHHHH-HHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHH
Confidence            34568999999999999887655 578999999999999999999999999999999999999999999999887652  


Q ss_pred             ----ChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          +...++.+|..+.  .||||||||||++...  +....+..+.....++..||..|||....  .+++||+|||++
T Consensus       256 ~~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~--r~~~~~~~~~e~~~~L~~LL~~~dg~~~~--~~ViVIaaTN~~  331 (638)
T CHL00176        256 FVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQ--RGAGIGGGNDEREQTLNQLLTEMDGFKGN--KGVIVIAATNRV  331 (638)
T ss_pred             hhhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhc--ccCCCCCCcHHHHHHHHHHHhhhccccCC--CCeeEEEecCch
Confidence                3456777886653  6899999999998652  22222223345567899999999998654  568999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      +.+|+|++||||||.+|+++.|+.++|.+|++.++...
T Consensus       332 ~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~  369 (638)
T CHL00176        332 DILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNK  369 (638)
T ss_pred             HhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999998764

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=99.96  E-value=5.2e-28  Score=257.16  Aligned_cols=185  Identities=28%  Similarity=0.392  Sum_probs=162.1

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc---
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL---  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~---  277 (455)
                      .+..+|++++|....|+.+.+.+..++.+++.|.+.|+.+++|+|||||||||||++|+|+|++++.+++.++.+++   
T Consensus       236 ~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~sk  315 (494)
T COG0464         236 DEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSK  315 (494)
T ss_pred             CCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhcc
Confidence            34468999999999999999999999999999999999999999999999999999999999999999999998865   


Q ss_pred             ---CChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          278 ---RSNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       278 ---~~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                         .++..++++|..+.  .||||||||+|.++..+....     .......+++||..|||+...  .+++||+|||++
T Consensus       316 ~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~-----~~~~~r~~~~lL~~~d~~e~~--~~v~vi~aTN~p  388 (494)
T COG0464         316 WVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSE-----DGSGRRVVGQLLTELDGIEKA--EGVLVIAATNRP  388 (494)
T ss_pred             ccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCC-----chHHHHHHHHHHHHhcCCCcc--CceEEEecCCCc
Confidence               35688999997765  799999999999976322111     112257899999999999665  669999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCC
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSH  392 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~  392 (455)
                      +.+|||++||||||..|+++.|+.++|..+++.++.....
T Consensus       389 ~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~  428 (494)
T COG0464         389 DDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKP  428 (494)
T ss_pred             cccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCC
Confidence            9999999999999999999999999999999999985443

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.95  E-value=8e-28  Score=251.32  Aligned_cols=188  Identities=23%  Similarity=0.318  Sum_probs=164.7

Q ss_pred             cccccccCCCC--CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          194 AADAINLDHPS--TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       194 ~w~~~~~~~p~--tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      +.+.+.+..+.  .|++++|..++|+.+.+.+..+.+.|..|...+++.+.|+|||||||||||.||.|+|...++.++.
T Consensus       652 aLR~ik~~k~tgi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fis  731 (952)
T KOG0735|consen  652 ALRGIKLVKSTGIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFIS  731 (952)
T ss_pred             HhhhccccccCCCCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEE
Confidence            34556666554  6999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Eecccc------CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCce
Q 047029          272 MELASL------RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER  343 (455)
Q Consensus       272 l~~~~~------~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~  343 (455)
                      +...++      .++..+|.+|..+  .+|||||+||+|.+.+.  |..+   ..+...+.+++||..|||.-.-  .++
T Consensus       732 vKGPElL~KyIGaSEq~vR~lF~rA~~a~PCiLFFDEfdSiAPk--RGhD---sTGVTDRVVNQlLTelDG~Egl--~GV  804 (952)
T KOG0735|consen  732 VKGPELLSKYIGASEQNVRDLFERAQSAKPCILFFDEFDSIAPK--RGHD---STGVTDRVVNQLLTELDGAEGL--DGV  804 (952)
T ss_pred             ecCHHHHHHHhcccHHHHHHHHHHhhccCCeEEEeccccccCcc--cCCC---CCCchHHHHHHHHHhhcccccc--ceE
Confidence            987765      4678899999765  47999999999999872  2222   2356678899999999998553  679


Q ss_pred             EEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          344 IIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       344 ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      .|+++|.+||.|||||+||||+|.+++.+.|++.+|.++++..-.
T Consensus       805 ~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~  849 (952)
T KOG0735|consen  805 YILAATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSN  849 (952)
T ss_pred             EEEEecCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999999887655

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.95  E-value=5.3e-28  Score=227.82  Aligned_cols=189  Identities=21%  Similarity=0.268  Sum_probs=154.5

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC---
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR---  278 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~---  278 (455)
                      ...+||+++|+++.|+.- ..+..|+.+|+.|..|.   |+++|+|||||||||++|+|+|++.+.+++.+..+++.   
T Consensus       116 ~~it~ddViGqEeAK~kc-rli~~yLenPe~Fg~WA---PknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGeh  191 (368)
T COG1223         116 SDITLDDVIGQEEAKRKC-RLIMEYLENPERFGDWA---PKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEH  191 (368)
T ss_pred             ccccHhhhhchHHHHHHH-HHHHHHhhChHHhcccC---cceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHH
Confidence            346899999999998765 44556999999888764   88999999999999999999999999999999988762   


Q ss_pred             ---ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          279 ---SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       279 ---~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                         ....+++++..+  ..|||+||||+|++.-.+.-+ .   -.+.-...++.||..|||+.++  ++++.|++||+|+
T Consensus       192 VGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQ-e---lRGDVsEiVNALLTelDgi~en--eGVvtIaaTN~p~  265 (368)
T COG1223         192 VGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQ-E---LRGDVSEIVNALLTELDGIKEN--EGVVTIAATNRPE  265 (368)
T ss_pred             hhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHH-H---hcccHHHHHHHHHHhccCcccC--CceEEEeecCChh
Confidence               346778887655  479999999999986422111 1   1133456789999999999865  7799999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                      .||||++.  ||...|+|..|+.++|..|++.|......++...+..+.
T Consensus       266 ~LD~aiRs--RFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~~~~~~  312 (368)
T COG1223         266 LLDPAIRS--RFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLA  312 (368)
T ss_pred             hcCHHHHh--hhhheeeeeCCChHHHHHHHHHHHHhCCCccccCHHHHH
Confidence            99999999  999999999999999999999999876555544444443

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=99.95  E-value=2.9e-27  Score=235.51  Aligned_cols=171  Identities=19%  Similarity=0.166  Sum_probs=134.2

Q ss_pred             HHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc------CChHHHHHHHHhhC-------CceEEEE
Q 047029          232 FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL------RSNSDLRRLLVSTG-------NRSILVI  298 (455)
Q Consensus       232 ~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~------~~~~~l~~ll~~~~-------~~~IL~i  298 (455)
                      +....|+.+|+|++||||||||||.+|+|+|+++|.+++.++.+++      +++..++++|..+.       +||||||
T Consensus       139 ~l~~~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a~~~~aPcVLFI  218 (413)
T PLN00020        139 FLALPNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGEPGKLIRQRYREAADIIKKKGKMSCLFI  218 (413)
T ss_pred             hhhccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHhhccCCCeEEEE
Confidence            3344689999999999999999999999999999999999998877      35688999996553       6999999


Q ss_pred             ecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc--------c--ccCCCceEEEEEcCCCCCCCccccCCCceeEE
Q 047029          299 EDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL--------W--SSCGDERIIVFTTNYKERLDPALLRPGRMDMH  368 (455)
Q Consensus       299 DEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~--------~--~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~  368 (455)
                      ||||.+++.+  ..  .......+.....|++.+|+.        |  ......++||+|||+|+.|||||+||||||..
T Consensus       219 DEIDA~~g~r--~~--~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRfDk~  294 (413)
T PLN00020        219 NDLDAGAGRF--GT--TQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKF  294 (413)
T ss_pred             ehhhhcCCCC--CC--CCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCCCCCce
Confidence            9999987622  11  111122344457899998863        3  12235689999999999999999999999996


Q ss_pred             EEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhccccCch
Q 047029          369 IHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTP  409 (455)
Q Consensus       369 I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~~~~tp  409 (455)
                      +  ..|+.++|..|++.++...+.. ..++.+++....-.+
T Consensus       295 i--~lPd~e~R~eIL~~~~r~~~l~-~~dv~~Lv~~f~gq~  332 (413)
T PLN00020        295 Y--WAPTREDRIGVVHGIFRDDGVS-REDVVKLVDTFPGQP  332 (413)
T ss_pred             e--CCCCHHHHHHHHHHHhccCCCC-HHHHHHHHHcCCCCC
Confidence            5  5799999999999998875433 577888877654443

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=99.95  E-value=8.3e-28  Score=231.48  Aligned_cols=197  Identities=26%  Similarity=0.341  Sum_probs=163.2

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC-----
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR-----  278 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~-----  278 (455)
                      .+|+.+.|.-++..++++-+..++..|+.+.++|+.+|.|++||||||||||.+|+++|..++.+++.+..+.+.     
T Consensus       129 ~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~kyiG  208 (388)
T KOG0651|consen  129 ISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKYIG  208 (388)
T ss_pred             cCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhhcc
Confidence            489999999999999999999999999999999999999999999999999999999999999999999888763     


Q ss_pred             -ChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCC
Q 047029          279 -SNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERL  355 (455)
Q Consensus       279 -~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~L  355 (455)
                       +..-+++.|..+.  .|||||+||||+...  .+.......+..-+.|+-.|+|.|||.-.-  +.+-+|+|||+|+.|
T Consensus       209 EsaRlIRemf~yA~~~~pciifmdeiDAigG--Rr~se~Ts~dreiqrTLMeLlnqmdgfd~l--~rVk~ImatNrpdtL  284 (388)
T KOG0651|consen  209 ESARLIRDMFRYAREVIPCIIFMDEIDAIGG--RRFSEGTSSDREIQRTLMELLNQMDGFDTL--HRVKTIMATNRPDTL  284 (388)
T ss_pred             cHHHHHHHHHHHHhhhCceEEeehhhhhhcc--EEeccccchhHHHHHHHHHHHHhhccchhc--ccccEEEecCCcccc
Confidence             3455667776554  589999999999865  223333334556788999999999998654  568899999999999


Q ss_pred             CccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc---cCCCchHHHHHhhcc
Q 047029          356 DPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI---KSHSMFDEIEELIKE  404 (455)
Q Consensus       356 d~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~---~~~~l~~ei~~ll~~  404 (455)
                      ||||+||||+|..+++|.|+...|..+++-+-..   .+.--+++|..+.++
T Consensus       285 dpaLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~~d~  336 (388)
T KOG0651|consen  285 DPALLRPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKLVDG  336 (388)
T ss_pred             chhhcCCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHHHhc
Confidence            9999999999999999999999998876644322   122235666666554

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.95  E-value=5.3e-27  Score=240.21  Aligned_cols=200  Identities=25%  Similarity=0.319  Sum_probs=159.4

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      .+..+|++++|.++++++|.+.+..++.+++.|..+|+.+++|+|||||||||||++|+++|+.++.+++.+..+.+.  
T Consensus       116 ~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~  195 (364)
T TIGR01242       116 RPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRK  195 (364)
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHH
Confidence            345689999999999999999999999999999999999999999999999999999999999999999888765542  


Q ss_pred             ----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          ....++.+|...  ..|+||||||+|.+...  +.....+.+...+.++..+++.+|++...  +++.||+|||++
T Consensus       196 ~~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~--~~~~~~~~~~~~~~~l~~ll~~ld~~~~~--~~v~vI~ttn~~  271 (364)
T TIGR01242       196 YIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAK--RTDSGTSGDREVQRTLMQLLAELDGFDPR--GNVKVIAATNRP  271 (364)
T ss_pred             hhhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhccc--cccCCCCccHHHHHHHHHHHHHhhCCCCC--CCEEEEEecCCh
Confidence                123455555443  46899999999998652  22222222334456778889889887443  568999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCC---CchHHHHHhhcc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSH---SMFDEIEELIKE  404 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~---~l~~ei~~ll~~  404 (455)
                      +.+|++++||||||..|+++.|+.++|..|++.++.....   ....++.+...+
T Consensus       272 ~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~~~~la~~t~g  326 (364)
T TIGR01242       272 DILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEG  326 (364)
T ss_pred             hhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCCHHHHHHHcCC
Confidence            9999999999999999999999999999999998765322   234555555543

Many proteins may score above the trusted cutoff because an internal

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.94  E-value=2.5e-27  Score=233.66  Aligned_cols=206  Identities=23%  Similarity=0.334  Sum_probs=169.3

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhc-CCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC---
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVG-KAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS---  279 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g-~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~---  279 (455)
                      .+|++++|.+.+++++.+.+..++++|++|...+ ..+++|+|||||||||||++|+|+|++.|..++.+..+.+.+   
T Consensus        89 v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~KWf  168 (386)
T KOG0737|consen   89 VSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSKWF  168 (386)
T ss_pred             eehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccccchhhH
Confidence            5899999999999999999999999999997443 356899999999999999999999999999999999987743   


Q ss_pred             ---hHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC
Q 047029          280 ---NSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER  354 (455)
Q Consensus       280 ---~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~  354 (455)
                         +.-+..+|.-..  +|+||||||+|..+..+  +   +.+.+....+-.++...+||+.+.....++|.++||+|..
T Consensus       169 gE~eKlv~AvFslAsKl~P~iIFIDEvds~L~~R--~---s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATNRP~D  243 (386)
T KOG0737|consen  169 GEAQKLVKAVFSLASKLQPSIIFIDEVDSFLGQR--R---STDHEATAMMKNEFMALWDGLSSKDSERVLVLGATNRPFD  243 (386)
T ss_pred             HHHHHHHHHHHhhhhhcCcceeehhhHHHHHhhc--c---cchHHHHHHHHHHHHHHhccccCCCCceEEEEeCCCCCcc
Confidence               233344443333  69999999999987633  1   2233445566778999999998886667888899999999


Q ss_pred             CCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCC---------------CchHHHHHhhccccCchhHHHhcc
Q 047029          355 LDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSH---------------SMFDEIEELIKEVEVTPAEEFMKS  416 (455)
Q Consensus       355 Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~---------------~l~~ei~~ll~~~~~tpa~~l~~~  416 (455)
                      ||+|++|  ||...++++.|+.++|++|++-+|..+..               ....++.++|..+.+.|+.++|..
T Consensus       244 lDeAiiR--R~p~rf~V~lP~~~qR~kILkviLk~e~~e~~vD~~~iA~~t~GySGSDLkelC~~Aa~~~ire~~~~  318 (386)
T KOG0737|consen  244 LDEAIIR--RLPRRFHVGLPDAEQRRKILKVILKKEKLEDDVDLDEIAQMTEGYSGSDLKELCRLAALRPIRELLVS  318 (386)
T ss_pred             HHHHHHH--hCcceeeeCCCchhhHHHHHHHHhcccccCcccCHHHHHHhcCCCcHHHHHHHHHHHhHhHHHHHHHh
Confidence            9999999  99999999999999999999999986521               113578888888888888666644

>PF14363 AAA_assoc: Domain associated at C-terminal with AAA

Probab=99.94  E-value=4.9e-27  Score=195.64  Aligned_cols=97  Identities=41%  Similarity=0.773  Sum_probs=93.5

Q ss_pred             hccHHHHHHHHHHHhhhhc-CCCCccEEEEecCCCCCccHHHHHHHHHhhccCCcccccccccccCCCCceEEEccCCCE
Q 047029           35 FIPQKLQDILSSKLEGLFG-KFSDQLTLIIEQSEGFSVNEIYQAAELYLSTRITPSIQQLRVSQAPREKSLSVTINEGQK  113 (455)
Q Consensus        35 ~~P~~l~~~i~~~~~~l~~-~~~~~~~~~i~e~~~~~~n~~~~a~~~yl~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  113 (455)
                      +||++||.++.++++++++ +++||+||+|+|++|+.+|++|+||++||+++++++++||++++++++++++++|++|++
T Consensus         1 ~~P~~lr~~~~~~~~~~~~~~~s~~~ti~I~E~~g~~~N~ly~a~~~YL~s~~s~~a~rL~~~~~~~~~~~~l~l~~~e~   80 (98)
T PF14363_consen    1 LLPHELRSYLRSLLRRLFSSRFSPYLTIVIPEFDGLSRNELYDAAQAYLSSKISPSARRLKASKSKNSKNLVLSLDDGEE   80 (98)
T ss_pred             CCCHHHHHHHHHHHHHHHhccCCCcEEEEEEeCCCccccHHHHHHHHHHhhccCcccceeeecccCCCCceEEecCCCCE
Confidence            6899999999999988886 899999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeeCCeEEEEEEEEee
Q 047029          114 VVDTFEGMQLTWELVTTE  131 (455)
Q Consensus       114 ~~d~f~g~~~~w~~~~~~  131 (455)
                      |+|+|+|+++||.+++++
T Consensus        81 V~D~F~Gv~v~W~~~~~e   98 (98)
T PF14363_consen   81 VVDVFEGVKVWWSSVCTE   98 (98)
T ss_pred             EEEEECCEEEEEEEEccC
Confidence            999999999999998763

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.94  E-value=5.7e-27  Score=224.45  Aligned_cols=189  Identities=24%  Similarity=0.294  Sum_probs=155.0

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc------
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL------  277 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~------  277 (455)
                      ..|++++|.+..|+.|.+.+..+++.|++|..--+| .+|+|||||||||||.||+|+|.+.+-.|+.+..+++      
T Consensus       130 VkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~P-wrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLvSKWmG  208 (439)
T KOG0739|consen  130 VKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKP-WRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMG  208 (439)
T ss_pred             CchhhhccchhHHHHHHhheeecccchhhhcCCCCc-ceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHHHHHhc
Confidence            468899999999999999999999999999875455 4799999999999999999999999999999988876      


Q ss_pred             CChHHHHHHHHh--hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCC
Q 047029          278 RSNSDLRRLLVS--TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERL  355 (455)
Q Consensus       278 ~~~~~l~~ll~~--~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~L  355 (455)
                      +++.-+..+|.-  ...|+||||||||.+...+.  .+   .....++.-.+||..|.|.-.. .++++|+++||-|+.|
T Consensus       209 ESEkLVknLFemARe~kPSIIFiDEiDslcg~r~--en---EseasRRIKTEfLVQMqGVG~d-~~gvLVLgATNiPw~L  282 (439)
T KOG0739|consen  209 ESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRS--EN---ESEASRRIKTEFLVQMQGVGND-NDGVLVLGATNIPWVL  282 (439)
T ss_pred             cHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCC--CC---chHHHHHHHHHHHHhhhccccC-CCceEEEecCCCchhH
Confidence            234444555533  34799999999998764221  11   2234556777899999998554 3679999999999999


Q ss_pred             CccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch-HHHHHh
Q 047029          356 DPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF-DEIEEL  401 (455)
Q Consensus       356 d~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~-~ei~~l  401 (455)
                      |.|++|  ||+..|++|.|...+|..+++.+++...|.+. .++..|
T Consensus       283 DsAIRR--RFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL  327 (439)
T KOG0739|consen  283 DSAIRR--RFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKEL  327 (439)
T ss_pred             HHHHHH--HhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHH
Confidence            999999  99999999999999999999999998877764 344444

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.94  E-value=1.7e-26  Score=262.68  Aligned_cols=193  Identities=17%  Similarity=0.178  Sum_probs=141.7

Q ss_pred             hHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC-----------------------------
Q 047029          229 RREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS-----------------------------  279 (455)
Q Consensus       229 ~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~-----------------------------  279 (455)
                      ++..+.++|..+|+|+||+||||||||.||+|+|++.+++++.+.++++..                             
T Consensus      1618 ~kP~slrLGl~pPKGILLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~ 1697 (2281)
T CHL00206       1618 GKPFSLRLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDL 1697 (2281)
T ss_pred             CcCHHHHcCCCCCCceEEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhhccccccccccccccccccccccccccccc
Confidence            455678899999999999999999999999999999999999998766431                             


Q ss_pred             --------------------hHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccc
Q 047029          280 --------------------NSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS  337 (455)
Q Consensus       280 --------------------~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~  337 (455)
                                          ...++.+|..+  .+||||+|||||++...           .....++++|++.|||...
T Consensus      1698 ~~e~~e~~n~~~~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~~-----------ds~~ltL~qLLneLDg~~~ 1766 (2281)
T CHL00206       1698 DTELLTMMNALTMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNVN-----------ESNYLSLGLLVNSLSRDCE 1766 (2281)
T ss_pred             chhhhhhcchhhhhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCCC-----------ccceehHHHHHHHhccccc
Confidence                                01245566544  57999999999998541           1223568999999998743


Q ss_pred             c-CCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccC-----C-Cc------------hHHH
Q 047029          338 S-CGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKS-----H-SM------------FDEI  398 (455)
Q Consensus       338 ~-~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~-----~-~l------------~~ei  398 (455)
                      . ...+++||+|||+|+.|||||+||||||.+|+++.|+..+|++++...+...+     . ..            .+|+
T Consensus      1767 ~~s~~~VIVIAATNRPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADL 1846 (2281)
T CHL00206       1767 RCSTRNILVIASTHIPQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSITMGSNARDL 1846 (2281)
T ss_pred             cCCCCCEEEEEeCCCcccCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhhcCCCCCcccccHHHHHHhCCCCCHHHH
Confidence            2 23579999999999999999999999999999999999999887765432111     1 11            2355


Q ss_pred             HHhhccccCchh---HHHhccCCHHHHHHHHHHHHHH
Q 047029          399 EELIKEVEVTPA---EEFMKSEDADVALNGLVDFLLR  432 (455)
Q Consensus       399 ~~ll~~~~~tpa---~~l~~~~~~~~al~~l~~~l~~  432 (455)
                      +.++.++...++   ...+...+.+.|+...+-.++.
T Consensus      1847 anLvNEAaliAirq~ks~Id~~~I~~Al~Rq~~g~~~ 1883 (2281)
T CHL00206       1847 VALTNEALSISITQKKSIIDTNTIRSALHRQTWDLRS 1883 (2281)
T ss_pred             HHHHHHHHHHHHHcCCCccCHHHHHHHHHHHHhhhhh
Confidence            555555444444   1233445677777777655543

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.93  E-value=8e-26  Score=246.40  Aligned_cols=183  Identities=26%  Similarity=0.419  Sum_probs=154.0

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc-----
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL-----  277 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~-----  277 (455)
                      ..+|+++.|.+..++++.+.+. ++..+..|..+|...++|+||+||||||||++++++|++++.+++.++++++     
T Consensus       148 ~~~~~di~g~~~~~~~l~~i~~-~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~  226 (644)
T PRK10733        148 KTTFADVAGCDEAKEEVAELVE-YLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFV  226 (644)
T ss_pred             hCcHHHHcCHHHHHHHHHHHHH-HhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhh
Confidence            4579999999999999877665 6778888999999999999999999999999999999999999999988754     


Q ss_pred             -CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC
Q 047029          278 -RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER  354 (455)
Q Consensus       278 -~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~  354 (455)
                       .+...++.+|...  ..|+||||||||.+..  .+.....+.......++++||..|||+...  ..+++|+|||+++.
T Consensus       227 g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~--~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~--~~vivIaaTN~p~~  302 (644)
T PRK10733        227 GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGR--QRGAGLGGGHDEREQTLNQMLVEMDGFEGN--EGIIVIAATNRPDV  302 (644)
T ss_pred             cccHHHHHHHHHHHHhcCCcEEEehhHhhhhh--ccCCCCCCCchHHHHHHHHHHHhhhcccCC--CCeeEEEecCChhh
Confidence             2346677777655  3689999999999865  222222223344567899999999998664  56999999999999


Q ss_pred             CCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          355 LDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       355 Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      ||+|++||||||.+|+++.|+.++|.+|++.++...
T Consensus       303 lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~  338 (644)
T PRK10733        303 LDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRV  338 (644)
T ss_pred             cCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcC
Confidence            999999999999999999999999999999998754

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=99.92  E-value=1.4e-24  Score=238.29  Aligned_cols=206  Identities=23%  Similarity=0.299  Sum_probs=167.0

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEE
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDM  272 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l  272 (455)
                      ...+.-.+|++++|.++++.++.+.+..++..|+.|..+++.+|||+|||||||||||++|+|+|..+     +..++.-
T Consensus       256 ~~~~~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmr  335 (1080)
T KOG0732|consen  256 LSVDSSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMR  335 (1080)
T ss_pred             hhhhcccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhh
Confidence            33445568999999999999999999999999999999999999999999999999999999999988     2333332


Q ss_pred             ecccc------CChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceE
Q 047029          273 ELASL------RSNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERI  344 (455)
Q Consensus       273 ~~~~~------~~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~i  344 (455)
                      ...+.      +.+.+++-+|..+.  .|+|||+||||-+.+.+....     +......++.||..|||+-++  +.++
T Consensus       336 kgaD~lskwvgEaERqlrllFeeA~k~qPSIIffdeIdGlapvrSskq-----Eqih~SIvSTLLaLmdGldsR--gqVv  408 (1080)
T KOG0732|consen  336 KGADCLSKWVGEAERQLRLLFEEAQKTQPSIIFFDEIDGLAPVRSSKQ-----EQIHASIVSTLLALMDGLDSR--GQVV  408 (1080)
T ss_pred             cCchhhccccCcHHHHHHHHHHHHhccCceEEeccccccccccccchH-----HHhhhhHHHHHHHhccCCCCC--CceE
Confidence            22221      35678888887764  699999999998887543221     223456788999999999776  7799


Q ss_pred             EEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc----------------hHHHHHhhccccCc
Q 047029          345 IVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM----------------FDEIEELIKEVEVT  408 (455)
Q Consensus       345 vI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l----------------~~ei~~ll~~~~~t  408 (455)
                      ||++||+++.+||||+||||||..++|++|+.++|.+++..+-....++.                ..++..+|.++.+.
T Consensus       409 vigATnRpda~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaLCTeAal~  488 (1080)
T KOG0732|consen  409 VIGATNRPDAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKALCTEAALI  488 (1080)
T ss_pred             EEcccCCccccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHHHHHHhhh
Confidence            99999999999999999999999999999999999999886654433222                34688888877776


Q ss_pred             hh
Q 047029          409 PA  410 (455)
Q Consensus       409 pa  410 (455)
                      +.
T Consensus       489 ~~  490 (1080)
T KOG0732|consen  489 AL  490 (1080)
T ss_pred             hh
Confidence            66

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.91  E-value=5.2e-24  Score=236.24  Aligned_cols=181  Identities=27%  Similarity=0.358  Sum_probs=154.0

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC---
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR---  278 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~---  278 (455)
                      +..+|++++|.+++++.|.+.+..++.+++.|+.+|+.+++|+|||||||||||++++++|++++.+++.+++..+.   
T Consensus       173 ~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~  252 (733)
T TIGR01243       173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKY  252 (733)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhccc
Confidence            44689999999999999999999999999999999999999999999999999999999999999999999876542   


Q ss_pred             ---ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          279 ---SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       279 ---~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                         +...++.+|...  ..|+||||||||.+...+  ...   .........+.|++.||++...  ..++||++||+++
T Consensus       253 ~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r--~~~---~~~~~~~~~~~Ll~~ld~l~~~--~~vivI~atn~~~  325 (733)
T TIGR01243       253 YGESEERLREIFKEAEENAPSIIFIDEIDAIAPKR--EEV---TGEVEKRVVAQLLTLMDGLKGR--GRVIVIGATNRPD  325 (733)
T ss_pred             ccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccc--cCC---cchHHHHHHHHHHHHhhccccC--CCEEEEeecCChh
Confidence               235677777654  468999999999986521  111   1122346778899999998654  5688999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      .||++++|+|||+.+|+++.|+.++|.+|++.+...
T Consensus       326 ~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~  361 (733)
T TIGR01243       326 ALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRN  361 (733)
T ss_pred             hcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999977654

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.

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.91  E-value=2.9e-24  Score=218.65  Aligned_cols=186  Identities=24%  Similarity=0.285  Sum_probs=157.6

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      ..+..|++++|...+|+.+.+.+..++.+++.|..+ .++.+|+||+||||||||+|++|+|.+.+..++.+..+++.  
T Consensus       147 ~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~gl-r~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLtsK  225 (428)
T KOG0740|consen  147 LRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGL-REPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTSK  225 (428)
T ss_pred             CCcccccCCcchhhHHHHhhhhhhhcccchHhhhcc-ccccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhhhh
Confidence            344679999999999999999999999999988875 45578999999999999999999999999999999988873  


Q ss_pred             ----ChHHHHHHHH--hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLV--STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~--~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          ++..++.+|.  ...+|+|+||||||.++..+  .   ......+.....++|..+|+..+...+.++||+|||.|
T Consensus       226 ~~Ge~eK~vralf~vAr~~qPsvifidEidslls~R--s---~~e~e~srr~ktefLiq~~~~~s~~~drvlvigaTN~P  300 (428)
T KOG0740|consen  226 YVGESEKLVRALFKVARSLQPSVIFIDEIDSLLSKR--S---DNEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGATNRP  300 (428)
T ss_pred             ccChHHHHHHHHHHHHHhcCCeEEEechhHHHHhhc--C---CcccccchhhhhHHHhhhccccCCCCCeEEEEecCCCc
Confidence                2345566663  33579999999999998733  1   22234455777889999999988877789999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM  394 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l  394 (455)
                      +.+|+|++|  ||...+++|.|+.++|..+|.+++....+.+
T Consensus       301 ~e~Dea~~R--rf~kr~yiplPd~etr~~~~~~ll~~~~~~l  340 (428)
T KOG0740|consen  301 WELDEAARR--RFVKRLYIPLPDYETRSLLWKQLLKEQPNGL  340 (428)
T ss_pred             hHHHHHHHH--HhhceeeecCCCHHHHHHHHHHHHHhCCCCc
Confidence            999999999  9999999999999999999999998775544

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.90  E-value=5.3e-24  Score=216.83  Aligned_cols=182  Identities=24%  Similarity=0.374  Sum_probs=141.1

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHH----HHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcE-EEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDR----FVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDI-YDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~----~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v-~~l~~~  275 (455)
                      ++.-.|++++- ..+.++.-+...+    -+-.|+.-.++|++.-+|+|||||||||||.+|+.+...|+..- -.++..
T Consensus       213 ~Pdf~Fe~mGI-GGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGP  291 (744)
T KOG0741|consen  213 NPDFNFESMGI-GGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGP  291 (744)
T ss_pred             CCCCChhhccc-ccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcH
Confidence            44457888642 1233333333332    22357888999999999999999999999999999999996532 234444


Q ss_pred             cc------CChHHHHHHHHhhC----------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccC
Q 047029          276 SL------RSNSDLRRLLVSTG----------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSC  339 (455)
Q Consensus       276 ~~------~~~~~l~~ll~~~~----------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~  339 (455)
                      ++      +++.+++++|.++.          .-.||++||||++..   ++++..++.+.....+++||.-|||.-.- 
T Consensus       292 eIL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICK---qRGS~~g~TGVhD~VVNQLLsKmDGVeqL-  367 (744)
T KOG0741|consen  292 EILNKYVGESEENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICK---QRGSMAGSTGVHDTVVNQLLSKMDGVEQL-  367 (744)
T ss_pred             HHHHHhhcccHHHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHH---hcCCCCCCCCccHHHHHHHHHhcccHHhh-
Confidence            43      57889999997663          236999999999874   44444445667778999999999998654 


Q ss_pred             CCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          340 GDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       340 ~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                       .+++||+-||++|.||+||+||||+.++++++.|++..|.+|++.+-.
T Consensus       368 -NNILVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~  415 (744)
T KOG0741|consen  368 -NNILVIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKIHTK  415 (744)
T ss_pred             -hcEEEEeccCchhhHHHHhcCCCceEEEEEEeCCCccCceEEEEhhhh
Confidence             679999999999999999999999999999999999999998886654

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

Probab=99.90  E-value=4.7e-23  Score=215.59  Aligned_cols=182  Identities=25%  Similarity=0.354  Sum_probs=159.9

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc----
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL----  277 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~----  277 (455)
                      ++.+ ++++|....-..+.+.+...+..+..|...|.++|+|+|+|||||||||.+++|+|++.+..++.++..++    
T Consensus       180 ~~~~-~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~  258 (693)
T KOG0730|consen  180 PEVG-DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKF  258 (693)
T ss_pred             cccc-cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhc
Confidence            5666 78889899999999999999999999999999999999999999999999999999999999999998865    


Q ss_pred             --CChHHHHHHHHhhC--C-ceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          278 --RSNSDLRRLLVSTG--N-RSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       278 --~~~~~l~~ll~~~~--~-~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                        ++++.+++.|..+.  + |+||||||+|.+.+.+...      .....++.++|+..|||+...  .++||+++||+|
T Consensus       259 ~gEte~~LR~~f~~a~k~~~psii~IdEld~l~p~r~~~------~~~e~Rv~sqlltL~dg~~~~--~~vivl~atnrp  330 (693)
T KOG0730|consen  259 PGETESNLRKAFAEALKFQVPSIIFIDELDALCPKREGA------DDVESRVVSQLLTLLDGLKPD--AKVIVLAATNRP  330 (693)
T ss_pred             ccchHHHHHHHHHHHhccCCCeeEeHHhHhhhCCccccc------chHHHHHHHHHHHHHhhCcCc--CcEEEEEecCCc
Confidence              46788999997764  4 9999999999997622111      113567889999999999744  679999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCC
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHS  393 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~  393 (455)
                      +.|||+++| ||||..++++.|+..+|.++++.+.....+.
T Consensus       331 ~sld~alRR-gRfd~ev~IgiP~~~~RldIl~~l~k~~~~~  370 (693)
T KOG0730|consen  331 DSLDPALRR-GRFDREVEIGIPGSDGRLDILRVLTKKMNLL  370 (693)
T ss_pred             cccChhhhc-CCCcceeeecCCCchhHHHHHHHHHHhcCCc
Confidence            999999999 9999999999999999999999998876554

>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=99.82  E-value=7.3e-20  Score=158.89  Aligned_cols=123  Identities=33%  Similarity=0.525  Sum_probs=99.6

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC------ChHHHHHHHHhh--CC-ceEEEEecccchhhhhhhcCCC
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR------SNSDLRRLLVST--GN-RSILVIEDIDCSIELENRQCGG  314 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~------~~~~l~~ll~~~--~~-~~IL~iDEiD~l~~~~~~~~~~  314 (455)
                      +||+||||||||++|+++|+.++.+++.+++..+.      ....+...+...  .. ++||+|||+|.+....     .
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~-----~   75 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKLFPKS-----Q   75 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGTSHHC-----S
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceeeeeccchhccccc-----c
Confidence            69999999999999999999999999999998764      345667777654  34 8999999999997632     1


Q ss_pred             CCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCC
Q 047029          315 GYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSY  373 (455)
Q Consensus       315 ~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~  373 (455)
                      ..........+..|++.++..... ..+++||+|||.++.++++++| |||+.+|+++.
T Consensus        76 ~~~~~~~~~~~~~L~~~l~~~~~~-~~~~~vI~ttn~~~~i~~~l~~-~rf~~~i~~~~  132 (132)
T PF00004_consen   76 PSSSSFEQRLLNQLLSLLDNPSSK-NSRVIVIATTNSPDKIDPALLR-SRFDRRIEFPL  132 (132)
T ss_dssp             TSSSHHHHHHHHHHHHHHHTTTTT-SSSEEEEEEESSGGGSCHHHHS-TTSEEEEEE-S
T ss_pred             cccccccccccceeeecccccccc-cccceeEEeeCChhhCCHhHHh-CCCcEEEEcCC
Confidence            112344566788899999988654 3468999999999999999998 89999999874

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 ....

>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=99.81  E-value=1.2e-18  Score=163.82  Aligned_cols=175  Identities=19%  Similarity=0.209  Sum_probs=119.2

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN  280 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~  280 (455)
                      -.|.+|++++|++++++.+.-.+.....+.        ..-..+|||||||+||||||..+|++++.++..++...+...
T Consensus        18 lRP~~L~efiGQ~~l~~~l~i~i~aa~~r~--------~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k~   89 (233)
T PF05496_consen   18 LRPKSLDEFIGQEHLKGNLKILIRAAKKRG--------EALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEKA   89 (233)
T ss_dssp             TS-SSCCCS-S-HHHHHHHHHHHHHHHCTT--------S---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--SC
T ss_pred             cCCCCHHHccCcHHHHhhhHHHHHHHHhcC--------CCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhhH
Confidence            358899999999999988655544332221        123479999999999999999999999999999888778888


Q ss_pred             HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccc-----cCC---------CceEEE
Q 047029          281 SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS-----SCG---------DERIIV  346 (455)
Q Consensus       281 ~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~-----~~~---------~~~ivI  346 (455)
                      .++..++.....+.|||||||+.+-.                .....|+..|+...-     ..+         ....+|
T Consensus        90 ~dl~~il~~l~~~~ILFIDEIHRlnk----------------~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTli  153 (233)
T PF05496_consen   90 GDLAAILTNLKEGDILFIDEIHRLNK----------------AQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLI  153 (233)
T ss_dssp             HHHHHHHHT--TT-EEEECTCCC--H----------------HHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEE
T ss_pred             HHHHHHHHhcCCCcEEEEechhhccH----------------HHHHHHHHHhccCeEEEEeccccccceeeccCCCceEe
Confidence            99999999888999999999998732                333446666653221     111         224688


Q ss_pred             EEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHh
Q 047029          347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEEL  401 (455)
Q Consensus       347 ~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~l  401 (455)
                      ++|+....|.++|+.  ||.+..++.+.+.++..+++++........+.++....
T Consensus       154 gATTr~g~ls~pLrd--RFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~  206 (233)
T PF05496_consen  154 GATTRAGLLSSPLRD--RFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEE  206 (233)
T ss_dssp             EEESSGCCTSHCCCT--TSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHH
T ss_pred             eeeccccccchhHHh--hcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHH
Confidence            899999999999999  99999999999999999999988777666665544333

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.

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.79  E-value=4.9e-19  Score=171.91  Aligned_cols=179  Identities=22%  Similarity=0.304  Sum_probs=137.4

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhh-cCCCCceeEEECCCCCChHHHHHHHHHHcC---------CcEEEEec
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRV-GKAWKRGYLLYGPPGTGKSSLIAAMANYLK---------FDIYDMEL  274 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~-g~~~~rg~LL~GPpGTGKTsla~alA~~l~---------~~v~~l~~  274 (455)
                      -|+.|+.+.++|++++......+.-.+.-... =+.|.|-+|||||||||||+|++|+|+.|.         ..++.+++
T Consensus       140 lWEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins  219 (423)
T KOG0744|consen  140 LWESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS  219 (423)
T ss_pred             hHHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh
Confidence            37888999999999998776555443322222 267889999999999999999999999983         34566666


Q ss_pred             ccc------CChHHHHHHHHhhC-------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCC
Q 047029          275 ASL------RSNSDLRRLLVSTG-------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGD  341 (455)
Q Consensus       275 ~~~------~~~~~l~~ll~~~~-------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~  341 (455)
                      .++      ++...+.++|.+..       .-..++|||++.+...+.. ..++....+.-+.++.+|..||.+...  .
T Consensus       220 hsLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~s-~~S~~EpsDaIRvVNalLTQlDrlK~~--~  296 (423)
T KOG0744|consen  220 HSLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAARTS-ASSRNEPSDAIRVVNALLTQLDRLKRY--P  296 (423)
T ss_pred             hHHHHHHHhhhhhHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHHh-hhcCCCCchHHHHHHHHHHHHHHhccC--C
Confidence            655      34455666665542       2346789999998764322 222223445668899999999999665  7


Q ss_pred             ceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          342 ERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       342 ~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      ++++.+|+|-.+.||.|+..  |-|.+.++++|+.+++..|++..+.
T Consensus       297 NvliL~TSNl~~siD~AfVD--RADi~~yVG~Pt~~ai~~Ilkscie  341 (423)
T KOG0744|consen  297 NVLILATSNLTDSIDVAFVD--RADIVFYVGPPTAEAIYEILKSCIE  341 (423)
T ss_pred             CEEEEeccchHHHHHHHhhh--HhhheeecCCccHHHHHHHHHHHHH
Confidence            89999999999999999999  9999999999999999999987764

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.78  E-value=6.7e-19  Score=175.19  Aligned_cols=216  Identities=19%  Similarity=0.196  Sum_probs=154.5

Q ss_pred             cchhHHHHHhhhhHHHHHHHHHHhccceEEEeec---------CcccccccCCCCCCcccccCHHHHHHHHHHHHHHHHh
Q 047029          159 KLFKDKVLNKYLPYVAERSKAIKETKKVIKLYSL---------CAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKR  229 (455)
Q Consensus       159 ~~~~~~vl~~yl~~v~~~~~~~~~~~~~~~~~~~---------~~w~~~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~  229 (455)
                      .+.-..|..+|+..++.....+++..+....+..         ..-....-.....|+.+++.+.+++.|.+....--+.
T Consensus       298 tkeg~~V~w~yi~r~LGqPSLiREsSrg~~pw~gsls~~k~~i~~~~~~s~~gk~pl~~ViL~psLe~Rie~lA~aTaNT  377 (630)
T KOG0742|consen  298 TKEGTLVTWRYIERRLGQPSLIRESSRGRFPWIGSLSALKHPIQGSRSASSRGKDPLEGVILHPSLEKRIEDLAIATANT  377 (630)
T ss_pred             ccccchhHHHHHHHHcCCchhhhhhccccCCCcccHHHHhchhhhhHhhhhcCCCCcCCeecCHHHHHHHHHHHHHhccc
Confidence            3455678999999999988888887764422211         0001111123345999999999999987655432222


Q ss_pred             HHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC-----ChHHHHHHHHhh---CCceEEEEecc
Q 047029          230 REFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR-----SNSDLRRLLVST---GNRSILVIEDI  301 (455)
Q Consensus       230 ~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~-----~~~~l~~ll~~~---~~~~IL~iDEi  301 (455)
                           +....+=|++|||||||||||++|+-+|...|+++-.+...++.     .-..+.++|.-.   .++-+|||||.
T Consensus       378 -----K~h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAPlG~qaVTkiH~lFDWakkS~rGLllFIDEA  452 (630)
T KOG0742|consen  378 -----KKHQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAPLGAQAVTKIHKLFDWAKKSRRGLLLFIDEA  452 (630)
T ss_pred             -----ccccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCccccchHHHHHHHHHHHHHhhcccceEEEehhh
Confidence                 22445568999999999999999999999999998888777763     235677777433   34679999999


Q ss_pred             cchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHH
Q 047029          302 DCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKI  381 (455)
Q Consensus       302 D~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~  381 (455)
                      |+++..++.  ..  ........++.||-. .|-.+   ..++++.+||+|+.+|.|+-.  |+|..|+||.|..++|..
T Consensus       453 DAFLceRnk--ty--mSEaqRsaLNAlLfR-TGdqS---rdivLvlAtNrpgdlDsAV~D--Ride~veFpLPGeEERfk  522 (630)
T KOG0742|consen  453 DAFLCERNK--TY--MSEAQRSALNALLFR-TGDQS---RDIVLVLATNRPGDLDSAVND--RIDEVVEFPLPGEEERFK  522 (630)
T ss_pred             HHHHHHhch--hh--hcHHHHHHHHHHHHH-hcccc---cceEEEeccCCccchhHHHHh--hhhheeecCCCChHHHHH
Confidence            998753222  11  122334455555533 23333   568899999999999999999  999999999999999999


Q ss_pred             HHHHhhcc
Q 047029          382 LAFNYLKI  389 (455)
Q Consensus       382 L~~~~l~~  389 (455)
                      |+..||+.
T Consensus       523 ll~lYlnk  530 (630)
T KOG0742|consen  523 LLNLYLNK  530 (630)
T ss_pred             HHHHHHHH
Confidence            99999874

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=99.76  E-value=9.1e-18  Score=159.84  Aligned_cols=185  Identities=20%  Similarity=0.280  Sum_probs=152.3

Q ss_pred             CcccccccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcE
Q 047029          193 CAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDI  269 (455)
Q Consensus       193 ~~w~~~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v  269 (455)
                      +...++....|..+++|+|.+.+|+.|++....|+.+.         +..++||||++|||||++++|+.+++   |+.+
T Consensus        13 ~~l~~i~~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~---------pannvLL~G~rGtGKSSlVkall~~y~~~GLRl   83 (249)
T PF05673_consen   13 GYLEPIKHPDPIRLDDLIGIERQKEALIENTEQFLQGL---------PANNVLLWGARGTGKSSLVKALLNEYADQGLRL   83 (249)
T ss_pred             CcEEecCCCCCCCHHHhcCHHHHHHHHHHHHHHHHcCC---------CCcceEEecCCCCCHHHHHHHHHHHHhhcCceE
Confidence            34567777888899999999999999999999999753         36799999999999999999999987   7889


Q ss_pred             EEEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEc
Q 047029          270 YDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT  349 (455)
Q Consensus       270 ~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TT  349 (455)
                      +.+.-.++..-..+...+...+.+.|||+||+..               .........|...|||-....+++++|.+|+
T Consensus        84 Iev~k~~L~~l~~l~~~l~~~~~kFIlf~DDLsF---------------e~~d~~yk~LKs~LeGgle~~P~NvliyATS  148 (249)
T PF05673_consen   84 IEVSKEDLGDLPELLDLLRDRPYKFILFCDDLSF---------------EEGDTEYKALKSVLEGGLEARPDNVLIYATS  148 (249)
T ss_pred             EEECHHHhccHHHHHHHHhcCCCCEEEEecCCCC---------------CCCcHHHHHHHHHhcCccccCCCcEEEEEec
Confidence            9999888888888888888888899999999763               2334557889999999988889999999999


Q ss_pred             CCCCCCCcccc----------C-----------CCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch-HHHHHh
Q 047029          350 NYKERLDPALL----------R-----------PGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF-DEIEEL  401 (455)
Q Consensus       350 N~~~~Ld~all----------R-----------pGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~-~ei~~l  401 (455)
                      |+...+.+...          .           ..||...|.|..|+.++..+|+++++...+..+. +++...
T Consensus       149 NRRHLv~E~~~d~~~~~~~eih~~d~~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~~~g~~~~~e~l~~~  222 (249)
T PF05673_consen  149 NRRHLVPESFSDREDIQDDEIHPSDTIEEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYAERYGLELDEEELRQE  222 (249)
T ss_pred             chhhccchhhhhccCCCccccCcchHHHHHHhHHHhCCcEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            97543332211          1           1399999999999999999999999987766665 344433

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.76  E-value=2e-17  Score=162.02  Aligned_cols=181  Identities=16%  Similarity=0.214  Sum_probs=126.4

Q ss_pred             CcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCC---ceeEEECCCCCChHHHHHHHHHHc-------CCcEEEEecc
Q 047029          206 FDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWK---RGYLLYGPPGTGKSSLIAAMANYL-------KFDIYDMELA  275 (455)
Q Consensus       206 fd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~---rg~LL~GPpGTGKTsla~alA~~l-------~~~v~~l~~~  275 (455)
                      +++++|.+++|++|.+.+..... .....+.|...+   .++|||||||||||++|+++|+.+       ..+++.++++
T Consensus         5 l~~~~Gl~~vk~~i~~~~~~~~~-~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~   83 (261)
T TIGR02881         5 LSRMVGLDEVKALIKEIYAWIQI-NEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERA   83 (261)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHH-HHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHH
Confidence            57899999999999887754433 344455666533   468999999999999999999976       2356666665


Q ss_pred             ccC------ChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEc
Q 047029          276 SLR------SNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT  349 (455)
Q Consensus       276 ~~~------~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TT  349 (455)
                      .+.      ....++++|... .++||||||+|.+..        ..........+..|+..|+...    .+.++|+++
T Consensus        84 ~l~~~~~g~~~~~~~~~~~~a-~~~VL~IDE~~~L~~--------~~~~~~~~~~i~~Ll~~~e~~~----~~~~vila~  150 (261)
T TIGR02881        84 DLVGEYIGHTAQKTREVIKKA-LGGVLFIDEAYSLAR--------GGEKDFGKEAIDTLVKGMEDNR----NEFVLILAG  150 (261)
T ss_pred             HhhhhhccchHHHHHHHHHhc-cCCEEEEechhhhcc--------CCccchHHHHHHHHHHHHhccC----CCEEEEecC
Confidence            542      234556666554 468999999998742        0011122345667888877642    345666665


Q ss_pred             CCCC-----CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          350 NYKE-----RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       350 N~~~-----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                      +..+     .++|++.+  ||+.+|+|+.++.+++.+++++++......+.++....+
T Consensus       151 ~~~~~~~~~~~~p~L~s--Rf~~~i~f~~~~~~el~~Il~~~~~~~~~~l~~~a~~~l  206 (261)
T TIGR02881       151 YSDEMDYFLSLNPGLRS--RFPISIDFPDYTVEELMEIAERMVKEREYKLTEEAKWKL  206 (261)
T ss_pred             CcchhHHHHhcChHHHh--ccceEEEECCCCHHHHHHHHHHHHHHcCCccCHHHHHHH
Confidence            4332     37899999  999999999999999999999999876555555544443

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.75  E-value=2.3e-17  Score=166.77  Aligned_cols=170  Identities=20%  Similarity=0.226  Sum_probs=130.4

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChH
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNS  281 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~  281 (455)
                      .|.+|++++|.++.++.+...+......        ..+++++|||||||||||++|+++|++++.++...+...+....
T Consensus        20 rP~~~~~~vG~~~~~~~l~~~l~~~~~~--------~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~~~   91 (328)
T PRK00080         20 RPKSLDEFIGQEKVKENLKIFIEAAKKR--------GEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPG   91 (328)
T ss_pred             CcCCHHHhcCcHHHHHHHHHHHHHHHhc--------CCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccChH
Confidence            4789999999999999887776543221        23356899999999999999999999999998887776666777


Q ss_pred             HHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-----cc---------CCCceEEEE
Q 047029          282 DLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-----SS---------CGDERIIVF  347 (455)
Q Consensus       282 ~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-----~~---------~~~~~ivI~  347 (455)
                      .+..++.....++||||||||.+..             .   ....+.+.|+...     ..         ......+|+
T Consensus        92 ~l~~~l~~l~~~~vl~IDEi~~l~~-------------~---~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~  155 (328)
T PRK00080         92 DLAAILTNLEEGDVLFIDEIHRLSP-------------V---VEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIG  155 (328)
T ss_pred             HHHHHHHhcccCCEEEEecHhhcch-------------H---HHHHHHHHHHhcceeeeeccCccccceeecCCCceEEe
Confidence            8888888888899999999998742             0   1111333333211     00         012367889


Q ss_pred             EcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH
Q 047029          348 TTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE  397 (455)
Q Consensus       348 TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e  397 (455)
                      +||++..++++|++  ||...+++++++.+++.+++++..+.....+.++
T Consensus       156 at~~~~~l~~~L~s--Rf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~  203 (328)
T PRK00080        156 ATTRAGLLTSPLRD--RFGIVQRLEFYTVEELEKIVKRSARILGVEIDEE  203 (328)
T ss_pred             ecCCcccCCHHHHH--hcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHH
Confidence            99999999999998  9999999999999999999999887765555544

>CHL00181 cbbX CbbX; Provisional

Probab=99.74  E-value=4.5e-17  Score=161.45  Aligned_cols=176  Identities=16%  Similarity=0.243  Sum_probs=127.1

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCc---eeEEECCCCCChHHHHHHHHHHcC-------CcEEEEeccc
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKR---GYLLYGPPGTGKSSLIAAMANYLK-------FDIYDMELAS  276 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~r---g~LL~GPpGTGKTsla~alA~~l~-------~~v~~l~~~~  276 (455)
                      ++++|.+++|++|.+.+. ++..+..+++.|...++   ++||+||||||||++|+++|+.+.       .+++.++.+.
T Consensus        23 ~~l~Gl~~vK~~i~e~~~-~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~  101 (287)
T CHL00181         23 EELVGLAPVKTRIREIAA-LLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDD  101 (287)
T ss_pred             HhcCCcHHHHHHHHHHHH-HHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHH
Confidence            479999999999988765 45556777788876543   489999999999999999999862       2477777554


Q ss_pred             cC------ChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcC
Q 047029          277 LR------SNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTN  350 (455)
Q Consensus       277 ~~------~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN  350 (455)
                      +.      +......++... .++||||||+|.+..  .+.     ...........|+..|+...    .+++||++++
T Consensus       102 l~~~~~g~~~~~~~~~l~~a-~ggVLfIDE~~~l~~--~~~-----~~~~~~e~~~~L~~~me~~~----~~~~vI~ag~  169 (287)
T CHL00181        102 LVGQYIGHTAPKTKEVLKKA-MGGVLFIDEAYYLYK--PDN-----ERDYGSEAIEILLQVMENQR----DDLVVIFAGY  169 (287)
T ss_pred             HHHHHhccchHHHHHHHHHc-cCCEEEEEccchhcc--CCC-----ccchHHHHHHHHHHHHhcCC----CCEEEEEeCC
Confidence            31      223445555554 468999999998753  110     11223456677888887532    4567777765


Q ss_pred             CCC-----CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH
Q 047029          351 YKE-----RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE  397 (455)
Q Consensus       351 ~~~-----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e  397 (455)
                      ...     .++|+|.+  ||+.+|+|+.++.+++.+|+..++......+.++
T Consensus       170 ~~~~~~~~~~np~L~s--R~~~~i~F~~~t~~el~~I~~~~l~~~~~~l~~~  219 (287)
T CHL00181        170 KDRMDKFYESNPGLSS--RIANHVDFPDYTPEELLQIAKIMLEEQQYQLTPE  219 (287)
T ss_pred             cHHHHHHHhcCHHHHH--hCCceEEcCCcCHHHHHHHHHHHHHHhcCCCChh
Confidence            322     34699999  9999999999999999999999998765555443

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.73  E-value=4.5e-17  Score=162.63  Aligned_cols=168  Identities=18%  Similarity=0.183  Sum_probs=126.3

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDL  283 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l  283 (455)
                      .+|++++|.++++++|...+......+        ..+++++||||||||||++++++|++++.++.............+
T Consensus         1 ~~~~~~iG~~~~~~~l~~~l~~~~~~~--------~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~~~~l   72 (305)
T TIGR00635         1 KLLAEFIGQEKVKEQLQLFIEAAKMRQ--------EALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKPGDL   72 (305)
T ss_pred             CCHHHHcCHHHHHHHHHHHHHHHHhcC--------CCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcCchhH
Confidence            378999999999998887775433221        234579999999999999999999999998877776655566677


Q ss_pred             HHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc--------------ccCCCceEEEEEc
Q 047029          284 RRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW--------------SSCGDERIIVFTT  349 (455)
Q Consensus       284 ~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~--------------~~~~~~~ivI~TT  349 (455)
                      ...+.....+.|||||||+.+.+                .....|++.|+...              .......++|++|
T Consensus        73 ~~~l~~~~~~~vl~iDEi~~l~~----------------~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t  136 (305)
T TIGR00635        73 AAILTNLEEGDVLFIDEIHRLSP----------------AVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGAT  136 (305)
T ss_pred             HHHHHhcccCCEEEEehHhhhCH----------------HHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEec
Confidence            77777777889999999998743                11122343333211              0011237888999


Q ss_pred             CCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH
Q 047029          350 NYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE  397 (455)
Q Consensus       350 N~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e  397 (455)
                      |++..+++++++  ||...++++.++.++..++++...+.....+.++
T Consensus       137 ~~~~~l~~~l~s--R~~~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~  182 (305)
T TIGR00635       137 TRAGMLTSPLRD--RFGIILRLEFYTVEELAEIVSRSAGLLNVEIEPE  182 (305)
T ss_pred             CCccccCHHHHh--hcceEEEeCCCCHHHHHHHHHHHHHHhCCCcCHH
Confidence            999999999999  9999999999999999999998887554444443

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.73  E-value=6.4e-17  Score=160.26  Aligned_cols=176  Identities=16%  Similarity=0.214  Sum_probs=128.8

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCC---CceeEEECCCCCChHHHHHHHHHHcC-------CcEEEEecccc
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAW---KRGYLLYGPPGTGKSSLIAAMANYLK-------FDIYDMELASL  277 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~---~rg~LL~GPpGTGKTsla~alA~~l~-------~~v~~l~~~~~  277 (455)
                      .++|.+++|++|.+.+.. +..++.+.+.|...   ..++||+||||||||++|+++|+.+.       .+++.+++..+
T Consensus        23 ~l~Gl~~vk~~i~e~~~~-~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l  101 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAAL-LLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDL  101 (284)
T ss_pred             hccCHHHHHHHHHHHHHH-HHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHH
Confidence            689999999999886664 66777788888764   34899999999999999999999873       25777776544


Q ss_pred             C------ChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCC
Q 047029          278 R------SNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY  351 (455)
Q Consensus       278 ~------~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~  351 (455)
                      .      +...+..+|..+ .++||||||++.+...  +     ............|++.|+..    ..+++||++++.
T Consensus       102 ~~~~~g~~~~~~~~~~~~a-~~gvL~iDEi~~L~~~--~-----~~~~~~~~~~~~Ll~~le~~----~~~~~vI~a~~~  169 (284)
T TIGR02880       102 VGQYIGHTAPKTKEILKRA-MGGVLFIDEAYYLYRP--D-----NERDYGQEAIEILLQVMENQ----RDDLVVILAGYK  169 (284)
T ss_pred             hHhhcccchHHHHHHHHHc-cCcEEEEechhhhccC--C-----CccchHHHHHHHHHHHHhcC----CCCEEEEEeCCc
Confidence            1      234455566554 4689999999987420  0     01122345567788888753    245777777654


Q ss_pred             C--C---CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHH
Q 047029          352 K--E---RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEI  398 (455)
Q Consensus       352 ~--~---~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei  398 (455)
                      .  +   .++|+|.+  ||+.+|+|+.++.+++..|+++++......+.++.
T Consensus       170 ~~~~~~~~~np~L~s--R~~~~i~fp~l~~edl~~I~~~~l~~~~~~l~~~a  219 (284)
T TIGR02880       170 DRMDSFFESNPGFSS--RVAHHVDFPDYSEAELLVIAGLMLKEQQYRFSAEA  219 (284)
T ss_pred             HHHHHHHhhCHHHHh--hCCcEEEeCCcCHHHHHHHHHHHHHHhccccCHHH
Confidence            2  2   25899999  99999999999999999999999987654444443

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.

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

Probab=99.70  E-value=2.7e-16  Score=150.99  Aligned_cols=184  Identities=20%  Similarity=0.215  Sum_probs=141.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN  280 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~  280 (455)
                      -.|.+|++.+|++++|+++.=.++..-.+.        ...-.+|||||||.||||||..+|+++|..+-......+...
T Consensus        20 lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~--------e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK~   91 (332)
T COG2255          20 LRPKTLDEFIGQEKVKEQLQIFIKAAKKRG--------EALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEKP   91 (332)
T ss_pred             cCcccHHHhcChHHHHHHHHHHHHHHHhcC--------CCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccCh
Confidence            358999999999999988766555433322        224479999999999999999999999999999998899999


Q ss_pred             HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc--------cccC------CCceEEE
Q 047029          281 SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL--------WSSC------GDERIIV  346 (455)
Q Consensus       281 ~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~--------~~~~------~~~~ivI  346 (455)
                      .++..+|.......|||||||+.+.+                ..-.-|.-.|+.+        -.+.      -...-+|
T Consensus        92 gDlaaiLt~Le~~DVLFIDEIHrl~~----------------~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLI  155 (332)
T COG2255          92 GDLAAILTNLEEGDVLFIDEIHRLSP----------------AVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLI  155 (332)
T ss_pred             hhHHHHHhcCCcCCeEEEehhhhcCh----------------hHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEe
Confidence            99999999999999999999999853                1111222333311        1110      0234588


Q ss_pred             EEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH-HHHHhhccccCchh
Q 047029          347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD-EIEELIKEVEVTPA  410 (455)
Q Consensus       347 ~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~-ei~~ll~~~~~tpa  410 (455)
                      ++|-+...|...|+.  ||.+..++.+.+.++...++.+.-...+..+.+ .+.++.....-||-
T Consensus       156 GATTr~G~lt~PLrd--RFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRGTPR  218 (332)
T COG2255         156 GATTRAGMLTNPLRD--RFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEIARRSRGTPR  218 (332)
T ss_pred             eeccccccccchhHH--hcCCeeeeecCCHHHHHHHHHHHHHHhCCCCChHHHHHHHHhccCCcH
Confidence            899999999999999  999999999999999999999988776655543 44455556666776

>PRK04195 replication factor C large subunit; Provisional

Probab=99.69  E-value=6.3e-16  Score=164.04  Aligned_cols=167  Identities=22%  Similarity=0.351  Sum_probs=126.8

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN  280 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~  280 (455)
                      ..|.+|++++|++++++.+.+.+..+..        |. +++++|||||||||||++|+++|++++++++.++.++..+.
T Consensus         8 yrP~~l~dlvg~~~~~~~l~~~l~~~~~--------g~-~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~~   78 (482)
T PRK04195          8 YRPKTLSDVVGNEKAKEQLREWIESWLK--------GK-PKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTA   78 (482)
T ss_pred             cCCCCHHHhcCCHHHHHHHHHHHHHHhc--------CC-CCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccccccH
Confidence            5689999999999999999998876653        22 26799999999999999999999999999999999887666


Q ss_pred             HHHHHHHHhh--------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          281 SDLRRLLVST--------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       281 ~~l~~ll~~~--------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                      ..+..++...        ..+.||+|||+|.+..            ......+..|++.++.      ....+|+++|.+
T Consensus        79 ~~i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~------------~~d~~~~~aL~~~l~~------~~~~iIli~n~~  140 (482)
T PRK04195         79 DVIERVAGEAATSGSLFGARRKLILLDEVDGIHG------------NEDRGGARAILELIKK------AKQPIILTANDP  140 (482)
T ss_pred             HHHHHHHHHhhccCcccCCCCeEEEEecCccccc------------ccchhHHHHHHHHHHc------CCCCEEEeccCc
Confidence            6666554332        2468999999998742            1112234566666653      224577788988


Q ss_pred             CCCCc-cccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH
Q 047029          353 ERLDP-ALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE  397 (455)
Q Consensus       353 ~~Ld~-allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e  397 (455)
                      ..+++ .+.+  |+ ..|+|+.|+.++...+++..+...+..+.++
T Consensus       141 ~~~~~k~Lrs--r~-~~I~f~~~~~~~i~~~L~~i~~~egi~i~~e  183 (482)
T PRK04195        141 YDPSLRELRN--AC-LMIEFKRLSTRSIVPVLKRICRKEGIECDDE  183 (482)
T ss_pred             cccchhhHhc--cc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHH
Confidence            88887 4554  44 6799999999999999998887665554443

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.69  E-value=9.8e-16  Score=165.32  Aligned_cols=160  Identities=19%  Similarity=0.311  Sum_probs=123.9

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------------  267 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--------------  267 (455)
                      .|.+|++|+|++.+++.|.+.+.            +...+..|||+||+|||||++++++|+.+++              
T Consensus        11 RPqtFdEVIGQe~Vv~~L~~aL~------------~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~s   78 (830)
T PRK07003         11 RPKDFASLVGQEHVVRALTHALD------------GGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRA   78 (830)
T ss_pred             CCCcHHHHcCcHHHHHHHHHHHh------------cCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHH
Confidence            58999999999999988877664            1223567999999999999999999999864              


Q ss_pred             ----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          268 ----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       268 ----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                +++.++..+-.+..++++++...      ....|+||||+|.+..                ...+.||..
T Consensus        79 Cr~I~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~----------------~A~NALLKt  142 (830)
T PRK07003         79 CREIDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTN----------------HAFNAMLKT  142 (830)
T ss_pred             HHHHhcCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCH----------------HHHHHHHHH
Confidence                      45556554434455677776543      2457999999998732                345677777


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      |+.-    ..+++||++||.+.+|.+.|++  || .++.|..++.++....+++.++.++..+.+
T Consensus       143 LEEP----P~~v~FILaTtd~~KIp~TIrS--RC-q~f~Fk~Ls~eeIv~~L~~Il~~EgI~id~  200 (830)
T PRK07003        143 LEEP----PPHVKFILATTDPQKIPVTVLS--RC-LQFNLKQMPAGHIVSHLERILGEERIAFEP  200 (830)
T ss_pred             HHhc----CCCeEEEEEECChhhccchhhh--he-EEEecCCcCHHHHHHHHHHHHHHcCCCCCH
Confidence            7653    2468899999999999999999  98 789999999999999998888766544443

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

Probab=99.68  E-value=4.6e-16  Score=155.75  Aligned_cols=152  Identities=26%  Similarity=0.360  Sum_probs=111.2

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChH
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNS  281 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~  281 (455)
                      .|.++++++|++++..+ ...|...+..         ..-..++|||||||||||+|+.||+..+.+|..++... .+..
T Consensus        19 RP~~lde~vGQ~HLlg~-~~~lrr~v~~---------~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~-~gvk   87 (436)
T COG2256          19 RPKSLDEVVGQEHLLGE-GKPLRRAVEA---------GHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVT-SGVK   87 (436)
T ss_pred             CCCCHHHhcChHhhhCC-CchHHHHHhc---------CCCceeEEECCCCCCHHHHHHHHHHhhCCceEEecccc-ccHH
Confidence            48999999999887422 1111111221         11347999999999999999999999999999988654 3557


Q ss_pred             HHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEc--CCCC
Q 047029          282 DLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT--NYKE  353 (455)
Q Consensus       282 ~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TT--N~~~  353 (455)
                      ++++++...      .++.|||||||+.+-.                .....||-.++.      +.+++|++|  |+--
T Consensus        88 dlr~i~e~a~~~~~~gr~tiLflDEIHRfnK----------------~QQD~lLp~vE~------G~iilIGATTENPsF  145 (436)
T COG2256          88 DLREIIEEARKNRLLGRRTILFLDEIHRFNK----------------AQQDALLPHVEN------GTIILIGATTENPSF  145 (436)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEEehhhhcCh----------------hhhhhhhhhhcC------CeEEEEeccCCCCCe
Confidence            788888655      2478999999998721                223446666653      446777644  6667


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      .|.+||++  |. ....+...+.++.++++++-+..
T Consensus       146 ~ln~ALlS--R~-~vf~lk~L~~~di~~~l~ra~~~  178 (436)
T COG2256         146 ELNPALLS--RA-RVFELKPLSSEDIKKLLKRALLD  178 (436)
T ss_pred             eecHHHhh--hh-heeeeecCCHHHHHHHHHHHHhh
Confidence            89999999  87 56889999999999999985543

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.68  E-value=1.4e-15  Score=160.01  Aligned_cols=161  Identities=19%  Similarity=0.355  Sum_probs=119.6

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      -.|.+|++++|++++++.|...+.    .        ...+.++|||||||||||++|+++|+.++.             
T Consensus         8 yRP~~~~divGq~~i~~~L~~~i~----~--------~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~   75 (472)
T PRK14962          8 YRPKTFSEVVGQDHVKKLIINALK----K--------NSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECR   75 (472)
T ss_pred             HCCCCHHHccCcHHHHHHHHHHHH----c--------CCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccH
Confidence            468999999999998777665443    2        123567999999999999999999999865             


Q ss_pred             -----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          268 -----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       268 -----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                 +++.++.+.-.+-..++++....      ....|++|||+|.+..                ..+..|+.
T Consensus        76 ~c~~i~~g~~~dv~el~aa~~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~----------------~a~~~LLk  139 (472)
T PRK14962         76 ACRSIDEGTFMDVIELDAASNRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTK----------------EAFNALLK  139 (472)
T ss_pred             HHHHHhcCCCCccEEEeCcccCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhHH----------------HHHHHHHH
Confidence                       56777665444455666655332      2457999999998732                23566788


Q ss_pred             hhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          331 FVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       331 ~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      .++..    ++.+++|++|+.+..+++++.+  |+. .++|..++.++...+++..+...+..+.+
T Consensus       140 ~LE~p----~~~vv~Ilattn~~kl~~~L~S--R~~-vv~f~~l~~~el~~~L~~i~~~egi~i~~  198 (472)
T PRK14962        140 TLEEP----PSHVVFVLATTNLEKVPPTIIS--RCQ-VIEFRNISDELIIKRLQEVAEAEGIEIDR  198 (472)
T ss_pred             HHHhC----CCcEEEEEEeCChHhhhHHHhc--CcE-EEEECCccHHHHHHHHHHHHHHcCCCCCH
Confidence            77753    2457777777778899999999  884 79999999999888888877655444433

>TIGR00763 lon ATP-dependent protease La

Probab=99.68  E-value=6.6e-16  Score=172.36  Aligned_cols=158  Identities=25%  Similarity=0.261  Sum_probs=114.8

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC--------
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS--------  279 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~--------  279 (455)
                      ++.|.+++|+.|.+.+......       +...+..+||+||||||||++|+++|+.++.+++.++++....        
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~-------~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~~  393 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLR-------GKMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHR  393 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhh-------cCCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCCC
Confidence            4778889999888866533222       2223347999999999999999999999999999987765422        


Q ss_pred             -------hHHHHHHHHhhC-CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc----cccC-------C
Q 047029          280 -------NSDLRRLLVSTG-NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL----WSSC-------G  340 (455)
Q Consensus       280 -------~~~l~~ll~~~~-~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~----~~~~-------~  340 (455)
                             ...+.+.|.... ...||+|||||.+..  +          ......+.|++.+|..    ....       .
T Consensus       394 ~~~~g~~~g~i~~~l~~~~~~~~villDEidk~~~--~----------~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~  461 (775)
T TIGR00763       394 RTYVGAMPGRIIQGLKKAKTKNPLFLLDEIDKIGS--S----------FRGDPASALLEVLDPEQNNAFSDHYLDVPFDL  461 (775)
T ss_pred             CceeCCCCchHHHHHHHhCcCCCEEEEechhhcCC--c----------cCCCHHHHHHHhcCHHhcCccccccCCceecc
Confidence                   234455554432 445999999999853  0          0111245566666631    1100       1


Q ss_pred             CceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          341 DERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       341 ~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      .++++|+|||..+.++++|++  ||+ .|+|+.++.+++.+|+++|+
T Consensus       462 s~v~~I~TtN~~~~i~~~L~~--R~~-vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       462 SKVIFIATANSIDTIPRPLLD--RME-VIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             CCEEEEEecCCchhCCHHHhC--Cee-EEecCCCCHHHHHHHHHHHH
Confidence            468899999999999999999  996 68999999999999999987

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.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.68  E-value=1.1e-15  Score=159.37  Aligned_cols=163  Identities=18%  Similarity=0.322  Sum_probs=121.5

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      -.|.+|++++|++.+.+.|...+..           | ..+..|||+||||||||++|+++|+.+++             
T Consensus        12 yRP~~f~dvVGQe~iv~~L~~~i~~-----------~-ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~   79 (484)
T PRK14956         12 YRPQFFRDVIHQDLAIGALQNALKS-----------G-KIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECT   79 (484)
T ss_pred             hCCCCHHHHhChHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCc
Confidence            3589999999999998887776641           1 12456999999999999999999999975             


Q ss_pred             -----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          268 -----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       268 -----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                 +++.++...-.+...++++....      ....|+||||+|.+..                ...+.||.
T Consensus        80 sC~~i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~----------------~A~NALLK  143 (484)
T PRK14956         80 SCLEITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTD----------------QSFNALLK  143 (484)
T ss_pred             HHHHHHccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCH----------------HHHHHHHH
Confidence                       35555543333344555554332      2457999999998732                35677787


Q ss_pred             hhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHH
Q 047029          331 FVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEI  398 (455)
Q Consensus       331 ~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei  398 (455)
                      .|+.    .+..+++|++|+.++.|.+++++  |+ .++.|..++.++....+++.+..++....++.
T Consensus       144 tLEE----Pp~~viFILaTte~~kI~~TI~S--RC-q~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eA  204 (484)
T PRK14956        144 TLEE----PPAHIVFILATTEFHKIPETILS--RC-QDFIFKKVPLSVLQDYSEKLCKIENVQYDQEG  204 (484)
T ss_pred             Hhhc----CCCceEEEeecCChhhccHHHHh--hh-heeeecCCCHHHHHHHHHHHHHHcCCCCCHHH
Confidence            7764    23578889999999999999999  98 57999999999988888888776655444443

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.66  E-value=1.1e-15  Score=162.90  Aligned_cols=162  Identities=20%  Similarity=0.321  Sum_probs=125.5

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      -+|.+|++|+|++.+++.|.+.+..            ...+..|||+||+|||||++++++|+.+++             
T Consensus        10 YRPqtFddVIGQe~vv~~L~~al~~------------gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~P   77 (700)
T PRK12323         10 WRPRDFTTLVGQEHVVRALTHALEQ------------QRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQP   77 (700)
T ss_pred             hCCCcHHHHcCcHHHHHHHHHHHHh------------CCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCC
Confidence            3589999999999999988877652            123568999999999999999999999976             


Q ss_pred             ----------------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhH
Q 047029          268 ----------------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTL  325 (455)
Q Consensus       268 ----------------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~l  325 (455)
                                      +++.++..+-.+-.++++++...      .+..|+||||+|.+-.                ...
T Consensus        78 CG~C~sC~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~----------------~Aa  141 (700)
T PRK12323         78 CGQCRACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTN----------------HAF  141 (700)
T ss_pred             CcccHHHHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCH----------------HHH
Confidence                            45556555434456677776543      2457999999998732                346


Q ss_pred             hhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH
Q 047029          326 SGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE  397 (455)
Q Consensus       326 s~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e  397 (455)
                      +.||..|+.-    ++++++|++||.+.+|.+.+++  |+ .++.|..++.++..+.+++.+..++....++
T Consensus       142 NALLKTLEEP----P~~v~FILaTtep~kLlpTIrS--RC-q~f~f~~ls~eei~~~L~~Il~~Egi~~d~e  206 (700)
T PRK12323        142 NAMLKTLEEP----PEHVKFILATTDPQKIPVTVLS--RC-LQFNLKQMPPGHIVSHLDAILGEEGIAHEVN  206 (700)
T ss_pred             HHHHHhhccC----CCCceEEEEeCChHhhhhHHHH--HH-HhcccCCCChHHHHHHHHHHHHHcCCCCCHH
Confidence            6788877652    3568899999999999999999  88 7899999999999998888887665544433

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.66  E-value=2.2e-15  Score=161.09  Aligned_cols=160  Identities=19%  Similarity=0.304  Sum_probs=123.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      -.|.+|++++|++.+++.|.+.+.            ....+..|||+||||||||++|+++|+.+++             
T Consensus         9 yRPktFddVIGQe~vv~~L~~aI~------------~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~   76 (702)
T PRK14960          9 YRPRNFNELVGQNHVSRALSSALE------------RGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCA   76 (702)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHH------------cCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCH
Confidence            358999999999999888877765            1223568999999999999999999999865             


Q ss_pred             -----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          268 -----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       268 -----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                 +++.++.++-.+-..+++++...      .+..|++|||+|.+-.                ...+.|+.
T Consensus        77 sC~~I~~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~----------------~A~NALLK  140 (702)
T PRK14960         77 TCKAVNEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLST----------------HSFNALLK  140 (702)
T ss_pred             HHHHHhcCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCH----------------HHHHHHHH
Confidence                       56666666544556777776543      2457999999998732                34567777


Q ss_pred             hhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch
Q 047029          331 FVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF  395 (455)
Q Consensus       331 ~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~  395 (455)
                      .++..    ++.+.+|++|+.+..+.+.+++  |+ .+++|..++.++....+++.+..++....
T Consensus       141 tLEEP----P~~v~FILaTtd~~kIp~TIlS--RC-q~feFkpLs~eEI~k~L~~Il~kEgI~id  198 (702)
T PRK14960        141 TLEEP----PEHVKFLFATTDPQKLPITVIS--RC-LQFTLRPLAVDEITKHLGAILEKEQIAAD  198 (702)
T ss_pred             HHhcC----CCCcEEEEEECChHhhhHHHHH--hh-heeeccCCCHHHHHHHHHHHHHHcCCCCC
Confidence            77653    3457788888888889999887  88 68999999999999888888876654443

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.65  E-value=6e-15  Score=151.17  Aligned_cols=162  Identities=17%  Similarity=0.277  Sum_probs=118.5

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------------  267 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--------------  267 (455)
                      .|.+|++++|++.+++.+.+.+..           | ..+..|||+||||||||++|+++|+.+++              
T Consensus        11 rP~~~~~iiGq~~~~~~l~~~~~~-----------~-~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~   78 (363)
T PRK14961         11 RPQYFRDIIGQKHIVTAISNGLSL-----------G-RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCII   78 (363)
T ss_pred             CCCchhhccChHHHHHHHHHHHHc-----------C-CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHH
Confidence            478999999999999887765541           1 23567999999999999999999999853              


Q ss_pred             ----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          268 ----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       268 ----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                +++.++.++-..-..+++++...      ....|++|||+|.+..                ...+.||..
T Consensus        79 c~~~~~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~----------------~a~naLLk~  142 (363)
T PRK14961         79 CKEIEKGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSR----------------HSFNALLKT  142 (363)
T ss_pred             HHHHhcCCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCH----------------HHHHHHHHH
Confidence                      34444443323345566665443      2356999999998732                334567777


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHH
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEI  398 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei  398 (455)
                      ++..    ++...+|++|+.++.+.+++..  |+ ..++++.++.++....+...+...+....++.
T Consensus       143 lEe~----~~~~~fIl~t~~~~~l~~tI~S--Rc-~~~~~~~l~~~el~~~L~~~~~~~g~~i~~~a  202 (363)
T PRK14961        143 LEEP----PQHIKFILATTDVEKIPKTILS--RC-LQFKLKIISEEKIFNFLKYILIKESIDTDEYA  202 (363)
T ss_pred             HhcC----CCCeEEEEEcCChHhhhHHHHh--hc-eEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHH
Confidence            7653    2456778888888899999988  87 67999999999999888887776654444433

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.63  E-value=1.3e-14  Score=153.51  Aligned_cols=161  Identities=22%  Similarity=0.296  Sum_probs=122.2

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      ..|.+|++++|++.+.+.+...+..            ...+.++||+||||||||++|+++|+.+++             
T Consensus        15 yRP~~f~dliGq~~vv~~L~~ai~~------------~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C   82 (507)
T PRK06645         15 YRPSNFAELQGQEVLVKVLSYTILN------------DRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTC   82 (507)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCC
Confidence            4689999999999998877665431            123568999999999999999999999854             


Q ss_pred             ---------------cEEEEeccccCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHh
Q 047029          268 ---------------DIYDMELASLRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLS  326 (455)
Q Consensus       268 ---------------~v~~l~~~~~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls  326 (455)
                                     +++.++..+-.+-.+++.++....      ...|++|||+|.+..                ..++
T Consensus        83 ~~C~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~----------------~a~n  146 (507)
T PRK06645         83 EQCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSK----------------GAFN  146 (507)
T ss_pred             CCChHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCH----------------HHHH
Confidence                           344455444345567777775542      467999999998732                3466


Q ss_pred             hhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          327 GLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       327 ~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      .|+..++.-    +...++|++|+.++++.+++.+  |+ ..++|..++.++....++..+..++....+
T Consensus       147 aLLk~LEep----p~~~vfI~aTte~~kI~~tI~S--Rc-~~~ef~~ls~~el~~~L~~i~~~egi~ie~  209 (507)
T PRK06645        147 ALLKTLEEP----PPHIIFIFATTEVQKIPATIIS--RC-QRYDLRRLSFEEIFKLLEYITKQENLKTDI  209 (507)
T ss_pred             HHHHHHhhc----CCCEEEEEEeCChHHhhHHHHh--cc-eEEEccCCCHHHHHHHHHHHHHHcCCCCCH
Confidence            777777642    3567888888888999999998  88 579999999999999999888766544443

>PLN03025 replication factor C subunit; Provisional

Probab=99.62  E-value=8.6e-15  Score=147.48  Aligned_cols=160  Identities=16%  Similarity=0.213  Sum_probs=114.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC-----CcEEEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK-----FDIYDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~-----~~v~~l~~~  275 (455)
                      ..|.+|++++|++++.+.|...+.    .       +.  ..++|||||||||||++|.++|+++.     ..++.++.+
T Consensus         7 yrP~~l~~~~g~~~~~~~L~~~~~----~-------~~--~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~s   73 (319)
T PLN03025          7 YRPTKLDDIVGNEDAVSRLQVIAR----D-------GN--MPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNAS   73 (319)
T ss_pred             cCCCCHHHhcCcHHHHHHHHHHHh----c-------CC--CceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeeccc
Confidence            478999999999988877655432    2       11  23699999999999999999999982     235566666


Q ss_pred             ccCChHHHHHHHHh---h------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEE
Q 047029          276 SLRSNSDLRRLLVS---T------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIV  346 (455)
Q Consensus       276 ~~~~~~~l~~ll~~---~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI  346 (455)
                      +..+...++..+..   .      ....|++|||+|.+..                ...+.|+..|+...    ....+|
T Consensus        74 d~~~~~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt~----------------~aq~aL~~~lE~~~----~~t~~i  133 (319)
T PLN03025         74 DDRGIDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTS----------------GAQQALRRTMEIYS----NTTRFA  133 (319)
T ss_pred             ccccHHHHHHHHHHHHhccccCCCCCeEEEEEechhhcCH----------------HHHHHHHHHHhccc----CCceEE
Confidence            55444455554422   1      2367999999998743                22345666665431    335678


Q ss_pred             EEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       347 ~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      ++||....+.++|.+  |+ ..++|+.|+.++....++..+..++..+.+
T Consensus       134 l~~n~~~~i~~~L~S--Rc-~~i~f~~l~~~~l~~~L~~i~~~egi~i~~  180 (319)
T PLN03025        134 LACNTSSKIIEPIQS--RC-AIVRFSRLSDQEILGRLMKVVEAEKVPYVP  180 (319)
T ss_pred             EEeCCccccchhHHH--hh-hcccCCCCCHHHHHHHHHHHHHHcCCCCCH
Confidence            899999999999998  77 579999999999988888887766544433

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.62  E-value=1e-14  Score=137.13  Aligned_cols=177  Identities=19%  Similarity=0.250  Sum_probs=148.2

Q ss_pred             cccccccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEE
Q 047029          194 AADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIY  270 (455)
Q Consensus       194 ~w~~~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~  270 (455)
                      ...+++-.+|..+.+|+|.+.+|+.+.+....|+.+.         +.+++||||..|||||+|++|+-+++   +..++
T Consensus        47 ~L~pv~~~~~i~L~~l~Gvd~qk~~L~~NT~~F~~G~---------pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLV  117 (287)
T COG2607          47 YLEPVPDPDPIDLADLVGVDRQKEALVRNTEQFAEGL---------PANNVLLWGARGTGKSSLVKALLNEYADEGLRLV  117 (287)
T ss_pred             cccCCCCCCCcCHHHHhCchHHHHHHHHHHHHHHcCC---------cccceEEecCCCCChHHHHHHHHHHHHhcCCeEE
Confidence            4456777778899999999999999999999998753         26789999999999999999999988   67899


Q ss_pred             EEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcC
Q 047029          271 DMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTN  350 (455)
Q Consensus       271 ~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN  350 (455)
                      .++-.++..-..+...+...+.+.|||+||+..               .........|-..+||-....+.+++|.+|+|
T Consensus       118 EV~k~dl~~Lp~l~~~Lr~~~~kFIlFcDDLSF---------------e~gd~~yK~LKs~LeG~ve~rP~NVl~YATSN  182 (287)
T COG2607         118 EVDKEDLATLPDLVELLRARPEKFILFCDDLSF---------------EEGDDAYKALKSALEGGVEGRPANVLFYATSN  182 (287)
T ss_pred             EEcHHHHhhHHHHHHHHhcCCceEEEEecCCCC---------------CCCchHHHHHHHHhcCCcccCCCeEEEEEecC
Confidence            999888888888999999999999999999863               22345677888999999998899999999999


Q ss_pred             CCCCCCcccc--------------------CCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc
Q 047029          351 YKERLDPALL--------------------RPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM  394 (455)
Q Consensus       351 ~~~~Ld~all--------------------RpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l  394 (455)
                      +...|++-..                    =..||...+.|..|+.++..+++.+|....+...
T Consensus       183 RRHLl~e~~~dn~~~~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~~~l~~  246 (287)
T COG2607         183 RRHLLPEDMKDNEGSTGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKHFGLDI  246 (287)
T ss_pred             CcccccHhhhhCCCcccccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHHcCCCC
Confidence            7655442211                    1249999999999999999999999987665554

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.62  E-value=1.3e-14  Score=152.47  Aligned_cols=161  Identities=17%  Similarity=0.273  Sum_probs=125.4

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC---------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---------------  266 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~---------------  266 (455)
                      .|.+|++++|++.+++.+.+.+..           | ..+.++||+|||||||||+|+++|+.++               
T Consensus         8 RP~~f~dliGQe~vv~~L~~a~~~-----------~-ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~   75 (491)
T PRK14964          8 RPSSFKDLVGQDVLVRILRNAFTL-----------N-KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHN   75 (491)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHH
Confidence            589999999999988877665431           2 2367899999999999999999999763               


Q ss_pred             ---------CcEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          267 ---------FDIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       267 ---------~~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                               .+++.++.++-.+-.+++.++...      ....|++|||+|.+..                ..++.||..
T Consensus        76 C~~i~~~~~~Dv~eidaas~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~----------------~A~NaLLK~  139 (491)
T PRK14964         76 CISIKNSNHPDVIEIDAASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSN----------------SAFNALLKT  139 (491)
T ss_pred             HHHHhccCCCCEEEEecccCCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCH----------------HHHHHHHHH
Confidence                     467778777656667788877554      2467999999998732                356778888


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE  397 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e  397 (455)
                      |+.-    ++.+++|++|+.++++.+.++.  |+ ..++|..++.++....+...+..++....++
T Consensus       140 LEeP----p~~v~fIlatte~~Kl~~tI~S--Rc-~~~~f~~l~~~el~~~L~~ia~~Egi~i~~e  198 (491)
T PRK14964        140 LEEP----APHVKFILATTEVKKIPVTIIS--RC-QRFDLQKIPTDKLVEHLVDIAKKENIEHDEE  198 (491)
T ss_pred             HhCC----CCCeEEEEEeCChHHHHHHHHH--hh-eeeecccccHHHHHHHHHHHHHHcCCCCCHH
Confidence            8764    3567888888989999999998  88 5799999999999888888887665554443

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.62  E-value=9.8e-15  Score=155.19  Aligned_cols=158  Identities=21%  Similarity=0.357  Sum_probs=121.4

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------------  267 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--------------  267 (455)
                      .|.+|++++|++.+++.|.+.+..            ...+..|||+||||||||++|+++|+.+++              
T Consensus        11 RP~~f~divGq~~v~~~L~~~~~~------------~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~   78 (509)
T PRK14958         11 RPRCFQEVIGQAPVVRALSNALDQ------------QYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCEN   78 (509)
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHh------------CCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHH
Confidence            489999999999999988877642            122557999999999999999999999964              


Q ss_pred             ----------cEEEEeccccCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          268 ----------DIYDMELASLRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       268 ----------~v~~l~~~~~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                +++.++.++-.+-.++++++....      +..|++|||+|.+..                ...+.||..
T Consensus        79 C~~i~~g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~----------------~a~naLLk~  142 (509)
T PRK14958         79 CREIDEGRFPDLFEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSG----------------HSFNALLKT  142 (509)
T ss_pred             HHHHhcCCCceEEEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCH----------------HHHHHHHHH
Confidence                      266677655455667777775432      357999999998742                345678887


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM  394 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l  394 (455)
                      |+..    ++.+.+|++|+.+.++.+.+++  |+ ..++|..++.++....++..+..++...
T Consensus       143 LEep----p~~~~fIlattd~~kl~~tI~S--Rc-~~~~f~~l~~~~i~~~l~~il~~egi~~  198 (509)
T PRK14958        143 LEEP----PSHVKFILATTDHHKLPVTVLS--RC-LQFHLAQLPPLQIAAHCQHLLKEENVEF  198 (509)
T ss_pred             Hhcc----CCCeEEEEEECChHhchHHHHH--Hh-hhhhcCCCCHHHHHHHHHHHHHHcCCCC
Confidence            7754    3567788888888999999988  88 6789999999988877777776655443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.61  E-value=1.7e-14  Score=155.78  Aligned_cols=159  Identities=21%  Similarity=0.345  Sum_probs=121.3

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------------  267 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--------------  267 (455)
                      .|.+|++++|++.+++.|.+.+..           | ..+..|||+||+|||||++|+++|+.+++              
T Consensus        11 RP~~f~divGQe~vv~~L~~~l~~-----------~-rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~   78 (647)
T PRK07994         11 RPQTFAEVVGQEHVLTALANALDL-----------G-RLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDN   78 (647)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHH
Confidence            589999999999999887766642           1 23557999999999999999999999965              


Q ss_pred             ----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          268 ----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       268 ----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                +++.++..+-.+-.++++++...      ....|++|||+|.+-.                ...+.||..
T Consensus        79 C~~i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~----------------~a~NALLKt  142 (647)
T PRK07994         79 CREIEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSR----------------HSFNALLKT  142 (647)
T ss_pred             HHHHHcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCH----------------HHHHHHHHH
Confidence                      34555554323445667666443      2457999999998732                456778888


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF  395 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~  395 (455)
                      |+.-    ++.+++|++|+.+.+|.+.+++  |+ .+++|..++.++....+.+.+..++....
T Consensus       143 LEEP----p~~v~FIL~Tt~~~kLl~TI~S--RC-~~~~f~~Ls~~ei~~~L~~il~~e~i~~e  199 (647)
T PRK07994        143 LEEP----PEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRQQLEHILQAEQIPFE  199 (647)
T ss_pred             HHcC----CCCeEEEEecCCccccchHHHh--hh-eEeeCCCCCHHHHHHHHHHHHHHcCCCCC
Confidence            7753    3567788888889999999999  87 89999999999999888888765544333

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=99.61  E-value=3.1e-15  Score=166.15  Aligned_cols=159  Identities=21%  Similarity=0.221  Sum_probs=115.5

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEE
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYD  271 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~  271 (455)
                      .|..+|.++|.++..+.+++.|.    +         ..+.+++|+||||||||++++++|+.+          +..++.
T Consensus       177 r~~~l~~~igr~~ei~~~~~~L~----~---------~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~  243 (731)
T TIGR02639       177 KNGKIDPLIGREDELERTIQVLC----R---------RKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS  243 (731)
T ss_pred             hcCCCCcccCcHHHHHHHHHHHh----c---------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE
Confidence            35678899998887777665553    1         226689999999999999999999987          778999


Q ss_pred             EeccccCC--------hHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCC
Q 047029          272 MELASLRS--------NSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGD  341 (455)
Q Consensus       272 l~~~~~~~--------~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~  341 (455)
                      ++++.+..        ...+++++....  .++||||||||.+.......      .+ .....+-|+..+.      .+
T Consensus       244 ~~~~~l~a~~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~------~~-~~~~~~~L~~~l~------~g  310 (731)
T TIGR02639       244 LDMGSLLAGTKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATS------GG-SMDASNLLKPALS------SG  310 (731)
T ss_pred             ecHHHHhhhccccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCC------Cc-cHHHHHHHHHHHh------CC
Confidence            98776532        257788887653  47899999999987521110      00 1111222333332      15


Q ss_pred             ceEEEEEcCCC-----CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          342 ERIIVFTTNYK-----ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       342 ~~ivI~TTN~~-----~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      ++.+|++||..     -.+|+||.|  ||. .|+++.|+.+++.+|++.....
T Consensus       311 ~i~~IgaTt~~e~~~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~il~~~~~~  360 (731)
T TIGR02639       311 KLRCIGSTTYEEYKNHFEKDRALSR--RFQ-KIDVGEPSIEETVKILKGLKEK  360 (731)
T ss_pred             CeEEEEecCHHHHHHHhhhhHHHHH--hCc-eEEeCCCCHHHHHHHHHHHHHH
Confidence            68888888863     357999999  997 7999999999999999976653

>PRK06893 DNA replication initiation factor; Validated

Probab=99.61  E-value=2.2e-14  Score=137.87  Aligned_cols=176  Identities=15%  Similarity=0.232  Sum_probs=111.9

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      +....+.+||++++.+..  .....+..   .      ........++||||||||||+|++|+|+++   +..+..+..
T Consensus         7 ~~~~~~~~fd~f~~~~~~--~~~~~~~~---~------~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~   75 (229)
T PRK06893          7 IHQIDDETLDNFYADNNL--LLLDSLRK---N------FIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPL   75 (229)
T ss_pred             CCCCCcccccccccCChH--HHHHHHHH---H------hhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeH
Confidence            455677899999976542  12222211   1      111223468999999999999999999987   456666665


Q ss_pred             cccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcC-CCC
Q 047029          275 ASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTN-YKE  353 (455)
Q Consensus       275 ~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN-~~~  353 (455)
                      ....  ....+.+....+..+|+||||+.+..           ......   .|++.++.....  +..++|+|+| .|.
T Consensus        76 ~~~~--~~~~~~~~~~~~~dlLilDDi~~~~~-----------~~~~~~---~l~~l~n~~~~~--~~~illits~~~p~  137 (229)
T PRK06893         76 SKSQ--YFSPAVLENLEQQDLVCLDDLQAVIG-----------NEEWEL---AIFDLFNRIKEQ--GKTLLLISADCSPH  137 (229)
T ss_pred             HHhh--hhhHHHHhhcccCCEEEEeChhhhcC-----------ChHHHH---HHHHHHHHHHHc--CCcEEEEeCCCChH
Confidence            4321  12234455556778999999998642           111222   344444444332  3345566555 565


Q ss_pred             CCC---ccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          354 RLD---PALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       354 ~Ld---~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                      .++   |.|.++.+.+..++++.|+.+++.+++++.....+..+.+++...+
T Consensus       138 ~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~l~l~~~v~~~L  189 (229)
T PRK06893        138 ALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRGIELSDEVANFL  189 (229)
T ss_pred             HccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            554   8899855556889999999999999999887665555555555444

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.61  E-value=2.1e-14  Score=157.66  Aligned_cols=159  Identities=21%  Similarity=0.339  Sum_probs=117.8

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc-------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD-------------  268 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~-------------  268 (455)
                      .|.+|++|+|++.+++.|.+.+.    .        ...+..|||+||||||||++|+++|+.+++.             
T Consensus        11 RP~tFddIIGQe~Iv~~LknaI~----~--------~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~s   78 (944)
T PRK14949         11 RPATFEQMVGQSHVLHALTNALT----Q--------QRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSS   78 (944)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHH----h--------CCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchH
Confidence            47899999999999988766554    1        1235678999999999999999999999653             


Q ss_pred             -----------EEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          269 -----------IYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       269 -----------v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                 ++.++..+..+-..++.+....      ....|+||||+|.+-                ...++.||..
T Consensus        79 C~~i~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT----------------~eAqNALLKt  142 (944)
T PRK14949         79 CVEIAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLS----------------RSSFNALLKT  142 (944)
T ss_pred             HHHHhcCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcC----------------HHHHHHHHHH
Confidence                       2233333222334566665433      245799999999873                2456778888


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF  395 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~  395 (455)
                      |+.-    ++.+++|++|+.+.+|.+.++.  |+ .+++|..++.++....+++.+..++....
T Consensus       143 LEEP----P~~vrFILaTTe~~kLl~TIlS--RC-q~f~fkpLs~eEI~~~L~~il~~EgI~~e  199 (944)
T PRK14949        143 LEEP----PEHVKFLLATTDPQKLPVTVLS--RC-LQFNLKSLTQDEIGTQLNHILTQEQLPFE  199 (944)
T ss_pred             Hhcc----CCCeEEEEECCCchhchHHHHH--hh-eEEeCCCCCHHHHHHHHHHHHHHcCCCCC
Confidence            7753    3457777888888899999998  88 78999999999999888888776544433

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=99.61  E-value=1.8e-14  Score=152.99  Aligned_cols=159  Identities=21%  Similarity=0.219  Sum_probs=118.6

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHH----
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDL----  283 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l----  283 (455)
                      +-.|.+++|++|++.|.-....       +.-...-++|+||||+|||||++++|+.+|..|+.+.++.+.++.++    
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~-------~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHR  396 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLT-------KKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHR  396 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHh-------ccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhcccc
Confidence            4468889999999987632222       11222458899999999999999999999999999999988665444    


Q ss_pred             -----------HHHHHhhC-CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccC-----------C
Q 047029          284 -----------RRLLVSTG-NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSC-----------G  340 (455)
Q Consensus       284 -----------~~ll~~~~-~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~-----------~  340 (455)
                                 .+.+..+. ..-+++|||||.+..            .....-.+.||+.+|--....           -
T Consensus       397 RTYIGamPGrIiQ~mkka~~~NPv~LLDEIDKm~s------------s~rGDPaSALLEVLDPEQN~~F~DhYLev~yDL  464 (782)
T COG0466         397 RTYIGAMPGKIIQGMKKAGVKNPVFLLDEIDKMGS------------SFRGDPASALLEVLDPEQNNTFSDHYLEVPYDL  464 (782)
T ss_pred             ccccccCChHHHHHHHHhCCcCCeEEeechhhccC------------CCCCChHHHHHhhcCHhhcCchhhccccCccch
Confidence                       33343333 456999999998843            111223466777666322111           1


Q ss_pred             CceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          341 DERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       341 ~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      .++++|+|.|..+.++.+|+.  ||. .|+++-.+.++..+|+++||=
T Consensus       465 S~VmFiaTANsl~tIP~PLlD--RME-iI~lsgYt~~EKl~IAk~~Li  509 (782)
T COG0466         465 SKVMFIATANSLDTIPAPLLD--RME-VIRLSGYTEDEKLEIAKRHLI  509 (782)
T ss_pred             hheEEEeecCccccCChHHhc--cee-eeeecCCChHHHHHHHHHhcc
Confidence            458999999999999999999  995 799999999999999999984

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.60  E-value=1.7e-14  Score=155.47  Aligned_cols=160  Identities=19%  Similarity=0.322  Sum_probs=122.1

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------------  267 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--------------  267 (455)
                      .|.+|++|+|++.+++.|.+.+..            ...+.+|||+||+|||||++|+++|+.+++              
T Consensus        11 RP~tFddIIGQe~vv~~L~~ai~~------------~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~s   78 (709)
T PRK08691         11 RPKTFADLVGQEHVVKALQNALDE------------GRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQS   78 (709)
T ss_pred             CCCCHHHHcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHH
Confidence            589999999999999988877652            233568999999999999999999998754              


Q ss_pred             ----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          268 ----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       268 ----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                +++.++..+-.+...+++++...      ....|+||||+|.+.                ....+.||..
T Consensus        79 Cr~i~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls----------------~~A~NALLKt  142 (709)
T PRK08691         79 CTQIDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLS----------------KSAFNAMLKT  142 (709)
T ss_pred             HHHHhccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccC----------------HHHHHHHHHH
Confidence                      34445544434455677776543      345799999999763                2345678888


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      |+..    ++.+.+|++||.+.++.+.++.  |+ ..+.|..++.++....++..+..++....+
T Consensus       143 LEEP----p~~v~fILaTtd~~kL~~TIrS--RC-~~f~f~~Ls~eeI~~~L~~Il~kEgi~id~  200 (709)
T PRK08691        143 LEEP----PEHVKFILATTDPHKVPVTVLS--RC-LQFVLRNMTAQQVADHLAHVLDSEKIAYEP  200 (709)
T ss_pred             HHhC----CCCcEEEEEeCCccccchHHHH--HH-hhhhcCCCCHHHHHHHHHHHHHHcCCCcCH
Confidence            7753    2457888899999999999887  88 689999999999998888888776554443

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.60  E-value=3.8e-14  Score=152.51  Aligned_cols=161  Identities=17%  Similarity=0.298  Sum_probs=123.2

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC---------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---------------  266 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~---------------  266 (455)
                      .|.+|++++|++.+++.+.+.+..            ...+..||||||+|||||++|+.+|+.++               
T Consensus        11 rP~~f~~viGq~~v~~~L~~~i~~------------~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~   78 (559)
T PRK05563         11 RPQTFEDVVGQEHITKTLKNAIKQ------------GKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEI   78 (559)
T ss_pred             CCCcHHhccCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHH
Confidence            489999999999999888777652            22356899999999999999999999884               


Q ss_pred             ---------CcEEEEeccccCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          267 ---------FDIYDMELASLRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       267 ---------~~v~~l~~~~~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                               .+++.++.++-.+-..++.+.....      ...|++|||+|.+..                ...+.||..
T Consensus        79 C~~i~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~----------------~a~naLLKt  142 (559)
T PRK05563         79 CKAITNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLST----------------GAFNALLKT  142 (559)
T ss_pred             HHHHhcCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCH----------------HHHHHHHHH
Confidence                     3566666654445566777665432      457999999998732                346677877


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE  397 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e  397 (455)
                      ++..    +..+++|++|+.++.+.+.+++  |+ ..++|..++.++....+...+...+....++
T Consensus       143 LEep----p~~~ifIlatt~~~ki~~tI~S--Rc-~~~~f~~~~~~ei~~~L~~i~~~egi~i~~~  201 (559)
T PRK05563        143 LEEP----PAHVIFILATTEPHKIPATILS--RC-QRFDFKRISVEDIVERLKYILDKEGIEYEDE  201 (559)
T ss_pred             hcCC----CCCeEEEEEeCChhhCcHHHHh--Hh-eEEecCCCCHHHHHHHHHHHHHHcCCCCCHH
Confidence            7653    3567888888889999999998  88 4689999999998888888887665554443

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.60  E-value=1.3e-14  Score=145.70  Aligned_cols=152  Identities=18%  Similarity=0.199  Sum_probs=111.6

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN  280 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~  280 (455)
                      ..|.+|++++|++++++.+...+.    .       | ..+..+|||||||+|||++++++|++++.+++.++++. ...
T Consensus        15 yrP~~~~~~~~~~~~~~~l~~~~~----~-------~-~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~-~~~   81 (316)
T PHA02544         15 YRPSTIDECILPAADKETFKSIVK----K-------G-RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD-CRI   81 (316)
T ss_pred             cCCCcHHHhcCcHHHHHHHHHHHh----c-------C-CCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc-ccH
Confidence            568999999999999888877664    1       2 23557777999999999999999999999999998887 222


Q ss_pred             HHHHHHH----Hhh---CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          281 SDLRRLL----VST---GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       281 ~~l~~ll----~~~---~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                      ..++..+    ...   ..+.||+|||+|.+..               ......|...++...    ....+|+|||.+.
T Consensus        82 ~~i~~~l~~~~~~~~~~~~~~vliiDe~d~l~~---------------~~~~~~L~~~le~~~----~~~~~Ilt~n~~~  142 (316)
T PHA02544         82 DFVRNRLTRFASTVSLTGGGKVIIIDEFDRLGL---------------ADAQRHLRSFMEAYS----KNCSFIITANNKN  142 (316)
T ss_pred             HHHHHHHHHHHHhhcccCCCeEEEEECcccccC---------------HHHHHHHHHHHHhcC----CCceEEEEcCChh
Confidence            3333322    111   3578999999997621               112233444555432    4467889999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      .+++++++  ||. .+.++.|+.+++..+++.++
T Consensus       143 ~l~~~l~s--R~~-~i~~~~p~~~~~~~il~~~~  173 (316)
T PHA02544        143 GIIEPLRS--RCR-VIDFGVPTKEEQIEMMKQMI  173 (316)
T ss_pred             hchHHHHh--hce-EEEeCCCCHHHHHHHHHHHH
Confidence            99999999  884 78999999999887766543

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.59  E-value=5.3e-14  Score=149.35  Aligned_cols=160  Identities=23%  Similarity=0.375  Sum_probs=118.9

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      -.|.+|++++|++++++.|...+..            ...+..+|||||||||||++|+++|+.+.+             
T Consensus         8 yRP~~~~dvvGq~~v~~~L~~~i~~------------~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~s   75 (504)
T PRK14963          8 ARPITFDEVVGQEHVKEVLLAALRQ------------GRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECES   75 (504)
T ss_pred             hCCCCHHHhcChHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChh
Confidence            3588999999999998888776652            123456899999999999999999999853             


Q ss_pred             ----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          268 ----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       268 ----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                +++.++.....+-..++.+....      ..+.|++|||+|.+.                ...++.|+..
T Consensus        76 c~~i~~~~h~dv~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls----------------~~a~naLLk~  139 (504)
T PRK14963         76 CLAVRRGAHPDVLEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMS----------------KSAFNALLKT  139 (504)
T ss_pred             hHHHhcCCCCceEEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccC----------------HHHHHHHHHH
Confidence                      25555554333344555553322      346799999999752                2446778887


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF  395 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~  395 (455)
                      ++.-    +...++|++||.+..+.+++.+  |+. +++|..++.++....++..+...+....
T Consensus       140 LEep----~~~t~~Il~t~~~~kl~~~I~S--Rc~-~~~f~~ls~~el~~~L~~i~~~egi~i~  196 (504)
T PRK14963        140 LEEP----PEHVIFILATTEPEKMPPTILS--RTQ-HFRFRRLTEEEIAGKLRRLLEAEGREAE  196 (504)
T ss_pred             HHhC----CCCEEEEEEcCChhhCChHHhc--ceE-EEEecCCCHHHHHHHHHHHHHHcCCCCC
Confidence            7653    2457888889999999999998  874 7999999999999998888876654443

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.59  E-value=2.8e-14  Score=148.73  Aligned_cols=150  Identities=25%  Similarity=0.331  Sum_probs=111.3

Q ss_pred             CCCCCCcccccCHHHHHH---HHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc
Q 047029          201 DHPSTFDTLAMDPVLKQA---LIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~---l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~  277 (455)
                      -.|.+|++++|++++...   +.+.+.    ..         ...+++|+||||||||++|+++|+.++.+++.++....
T Consensus         6 ~RP~~l~d~vGq~~~v~~~~~L~~~i~----~~---------~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~   72 (413)
T PRK13342          6 MRPKTLDEVVGQEHLLGPGKPLRRMIE----AG---------RLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTS   72 (413)
T ss_pred             hCCCCHHHhcCcHHHhCcchHHHHHHH----cC---------CCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccc
Confidence            357899999999887554   544442    21         13489999999999999999999999999999887643


Q ss_pred             CChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEc--
Q 047029          278 RSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT--  349 (455)
Q Consensus       278 ~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TT--  349 (455)
                       +...++.++...      ..+.||||||+|.+..                .....|+..++.      +.+++|++|  
T Consensus        73 -~~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~~----------------~~q~~LL~~le~------~~iilI~att~  129 (413)
T PRK13342         73 -GVKDLREVIEEARQRRSAGRRTILFIDEIHRFNK----------------AQQDALLPHVED------GTITLIGATTE  129 (413)
T ss_pred             -cHHHHHHHHHHHHHhhhcCCceEEEEechhhhCH----------------HHHHHHHHHhhc------CcEEEEEeCCC
Confidence             344566665443      2578999999998732                223456666653      235566554  


Q ss_pred             CCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          350 NYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       350 N~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      |....+++++++  |+ ..+.++.++.++...++++.+..
T Consensus       130 n~~~~l~~aL~S--R~-~~~~~~~ls~e~i~~lL~~~l~~  166 (413)
T PRK13342        130 NPSFEVNPALLS--RA-QVFELKPLSEEDIEQLLKRALED  166 (413)
T ss_pred             ChhhhccHHHhc--cc-eeeEeCCCCHHHHHHHHHHHHHH
Confidence            445689999999  88 67999999999999999987754

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.59  E-value=3.6e-14  Score=152.99  Aligned_cols=161  Identities=17%  Similarity=0.302  Sum_probs=120.7

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------------  267 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--------------  267 (455)
                      .|.+|++++|++.+++.|.+.+..            ...+..|||+||+|||||++++++|+.+++              
T Consensus        11 RP~~f~dviGQe~vv~~L~~~l~~------------~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pC   78 (618)
T PRK14951         11 RPRSFSEMVGQEHVVQALTNALTQ------------QRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPC   78 (618)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCC
Confidence            479999999999988877776541            122567999999999999999999999864              


Q ss_pred             ---------------cEEEEeccccCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHh
Q 047029          268 ---------------DIYDMELASLRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLS  326 (455)
Q Consensus       268 ---------------~v~~l~~~~~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls  326 (455)
                                     +++.++..+-.+-.++++++....      +..|++|||+|.+..                ...+
T Consensus        79 g~C~~C~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~----------------~a~N  142 (618)
T PRK14951         79 GVCQACRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTN----------------TAFN  142 (618)
T ss_pred             CccHHHHHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCH----------------HHHH
Confidence                           344555443334456777775432      357999999998742                3456


Q ss_pred             hhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH
Q 047029          327 GLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE  397 (455)
Q Consensus       327 ~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e  397 (455)
                      .||..++.-    ++..++|++|+.+.++.+.++.  |+ .+++|..++.++....++..+..++....++
T Consensus       143 aLLKtLEEP----P~~~~fIL~Ttd~~kil~TIlS--Rc-~~~~f~~Ls~eei~~~L~~i~~~egi~ie~~  206 (618)
T PRK14951        143 AMLKTLEEP----PEYLKFVLATTDPQKVPVTVLS--RC-LQFNLRPMAPETVLEHLTQVLAAENVPAEPQ  206 (618)
T ss_pred             HHHHhcccC----CCCeEEEEEECCchhhhHHHHH--hc-eeeecCCCCHHHHHHHHHHHHHHcCCCCCHH
Confidence            777776653    3567788888888889989888  87 7899999999998888888877665544433

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.59  E-value=4.9e-14  Score=151.36  Aligned_cols=163  Identities=23%  Similarity=0.374  Sum_probs=121.9

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      -.|.+|++++|++.+++.|.+.+..           | ..+..||||||+|||||++|+++|+.+++             
T Consensus         7 yRP~~f~eivGq~~i~~~L~~~i~~-----------~-r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~   74 (584)
T PRK14952          7 YRPATFAEVVGQEHVTEPLSSALDA-----------G-RINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCE   74 (584)
T ss_pred             hCCCcHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccH
Confidence            3589999999999998887776641           1 23457999999999999999999998863             


Q ss_pred             -------------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhh
Q 047029          268 -------------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGL  328 (455)
Q Consensus       268 -------------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~L  328 (455)
                                   +++.++.++..+-..++++....      ....|++|||+|.+-.                ...+.|
T Consensus        75 ~C~~i~~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~----------------~A~NAL  138 (584)
T PRK14952         75 SCVALAPNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTT----------------AGFNAL  138 (584)
T ss_pred             HHHHhhcccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCH----------------HHHHHH
Confidence                         34455554433445565554322      3467999999998732                356778


Q ss_pred             hhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHH
Q 047029          329 LNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEI  398 (455)
Q Consensus       329 L~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei  398 (455)
                      |..|+..    ++.+++|++|+.+++|.++++.  |+ .+++|..++.++....+..++...+....++.
T Consensus       139 LK~LEEp----p~~~~fIL~tte~~kll~TI~S--Rc-~~~~F~~l~~~~i~~~L~~i~~~egi~i~~~a  201 (584)
T PRK14952        139 LKIVEEP----PEHLIFIFATTEPEKVLPTIRS--RT-HHYPFRLLPPRTMRALIARICEQEGVVVDDAV  201 (584)
T ss_pred             HHHHhcC----CCCeEEEEEeCChHhhHHHHHH--hc-eEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHH
Confidence            8888753    3568888888888999999998  86 68999999999998888888877655454443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.58  E-value=5.5e-14  Score=143.11  Aligned_cols=163  Identities=20%  Similarity=0.341  Sum_probs=120.2

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      ..|.+|++++|.+.+++.+.+.+..           | ..+..+|||||||+|||++++++|+.+..             
T Consensus         8 ~rp~~~~~iig~~~~~~~l~~~~~~-----------~-~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~   75 (355)
T TIGR02397         8 YRPQTFEDVIGQEHIVQTLKNAIKN-----------G-RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECE   75 (355)
T ss_pred             hCCCcHhhccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCH
Confidence            3578999999999999888776642           1 23568999999999999999999998742             


Q ss_pred             -----------cEEEEeccccCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          268 -----------DIYDMELASLRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       268 -----------~v~~l~~~~~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                 +++.++.....+...+++++....      .+.|++|||+|.+..                ...+.|+.
T Consensus        76 ~c~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~----------------~~~~~Ll~  139 (355)
T TIGR02397        76 SCKEINSGSSLDVIEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSK----------------SAFNALLK  139 (355)
T ss_pred             HHHHHhcCCCCCEEEeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCH----------------HHHHHHHH
Confidence                       344454443333445666665432      356999999997632                34566777


Q ss_pred             hhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHH
Q 047029          331 FVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEI  398 (455)
Q Consensus       331 ~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei  398 (455)
                      .++..    +...++|++||.++.+.+++.+  |+ ..++++.|+.++...++..++...+....++.
T Consensus       140 ~le~~----~~~~~lIl~~~~~~~l~~~l~s--r~-~~~~~~~~~~~~l~~~l~~~~~~~g~~i~~~a  200 (355)
T TIGR02397       140 TLEEP----PEHVVFILATTEPHKIPATILS--RC-QRFDFKRIPLEDIVERLKKILDKEGIKIEDEA  200 (355)
T ss_pred             HHhCC----ccceeEEEEeCCHHHHHHHHHh--he-eEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHH
Confidence            77653    3457788888989989999998  87 57899999999999999988876655554443

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.

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.58  E-value=4.8e-14  Score=156.74  Aligned_cols=160  Identities=21%  Similarity=0.299  Sum_probs=119.8

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      ..|.+|++|+|++.+++.|...+..           | ..+..||||||+|||||++|+++|+.|++             
T Consensus         9 yRP~~f~eiiGqe~v~~~L~~~i~~-----------~-ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~   76 (824)
T PRK07764          9 YRPATFAEVIGQEHVTEPLSTALDS-----------G-RINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECD   76 (824)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHh-----------C-CCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccH
Confidence            4689999999999999887776641           1 22457999999999999999999999963             


Q ss_pred             -------------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhh
Q 047029          268 -------------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGL  328 (455)
Q Consensus       268 -------------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~L  328 (455)
                                   +++.++..+..+-.+++++....      ....|+||||+|.+-.                ...+.|
T Consensus        77 sC~~~~~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~----------------~a~NaL  140 (824)
T PRK07764         77 SCVALAPGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTP----------------QGFNAL  140 (824)
T ss_pred             HHHHHHcCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCH----------------HHHHHH
Confidence                         34445443333345555553221      3467999999998732                446678


Q ss_pred             hhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch
Q 047029          329 LNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF  395 (455)
Q Consensus       329 L~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~  395 (455)
                      |..|+..    +...++|++|+.+++|-+.|+.  |+ .+++|..++.++....+...+..++....
T Consensus       141 LK~LEEp----P~~~~fIl~tt~~~kLl~TIrS--Rc-~~v~F~~l~~~~l~~~L~~il~~EGv~id  200 (824)
T PRK07764        141 LKIVEEP----PEHLKFIFATTEPDKVIGTIRS--RT-HHYPFRLVPPEVMRGYLERICAQEGVPVE  200 (824)
T ss_pred             HHHHhCC----CCCeEEEEEeCChhhhhHHHHh--he-eEEEeeCCCHHHHHHHHHHHHHHcCCCCC
Confidence            8888764    3567888888988999999998  87 68999999999998888888866554433

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.58  E-value=7.1e-14  Score=148.93  Aligned_cols=160  Identities=18%  Similarity=0.309  Sum_probs=117.8

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------------  267 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--------------  267 (455)
                      .|.+|++++|++.+++.+...+..            ...+..|||+||||||||++|+++|+.+++              
T Consensus        11 RP~~f~diiGq~~~v~~L~~~i~~------------~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~s   78 (546)
T PRK14957         11 RPQSFAEVAGQQHALNSLVHALET------------QKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCEN   78 (546)
T ss_pred             CcCcHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHH
Confidence            478999999999999887766641            122557999999999999999999998864              


Q ss_pred             ----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          268 ----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       268 ----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                +++.++...-.+..++++++...      ....|++|||+|.+-.                ...+.||..
T Consensus        79 C~~i~~~~~~dlieidaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~----------------~a~naLLK~  142 (546)
T PRK14957         79 CVAINNNSFIDLIEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSK----------------QSFNALLKT  142 (546)
T ss_pred             HHHHhcCCCCceEEeecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccH----------------HHHHHHHHH
Confidence                      45555553333344555555433      2467999999998632                356678888


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      |+..    ++.+++|++|+.+..+.++++.  |+ ..++|..++.++....+...+..++....+
T Consensus       143 LEep----p~~v~fIL~Ttd~~kil~tI~S--Rc-~~~~f~~Ls~~eI~~~L~~il~~egi~~e~  200 (546)
T PRK14957        143 LEEP----PEYVKFILATTDYHKIPVTILS--RC-IQLHLKHISQADIKDQLKIILAKENINSDE  200 (546)
T ss_pred             HhcC----CCCceEEEEECChhhhhhhHHH--he-eeEEeCCCCHHHHHHHHHHHHHHcCCCCCH
Confidence            8753    3457777777778888888888  88 789999999999888888777655443333

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.57  E-value=1.2e-13  Score=141.80  Aligned_cols=161  Identities=20%  Similarity=0.353  Sum_probs=116.9

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC------------c
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF------------D  268 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~------------~  268 (455)
                      ..|.+|++++|++.+++.+.+.+..            ...+.+||||||||+|||++++++|+.+..            +
T Consensus        11 ~rP~~~~~iig~~~~~~~l~~~i~~------------~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~   78 (367)
T PRK14970         11 YRPQTFDDVVGQSHITNTLLNAIEN------------NHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFN   78 (367)
T ss_pred             HCCCcHHhcCCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcc
Confidence            4589999999999988877776652            133569999999999999999999998843            2


Q ss_pred             EEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCc
Q 047029          269 IYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDE  342 (455)
Q Consensus       269 v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~  342 (455)
                      ++.++.....+...++.++...      ..+.|++|||+|.+..                ..++.|+..++..    +..
T Consensus        79 ~~~l~~~~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~----------------~~~~~ll~~le~~----~~~  138 (367)
T PRK14970         79 IFELDAASNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSS----------------AAFNAFLKTLEEP----PAH  138 (367)
T ss_pred             eEEeccccCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcCH----------------HHHHHHHHHHhCC----CCc
Confidence            3334333333346677776543      2457999999997632                2356677777653    245


Q ss_pred             eEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          343 RIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       343 ~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      .++|++|+.+..+.+++.+  |+ ..++++.|+.++....+...+...+..+.+
T Consensus       139 ~~~Il~~~~~~kl~~~l~s--r~-~~v~~~~~~~~~l~~~l~~~~~~~g~~i~~  189 (367)
T PRK14970        139 AIFILATTEKHKIIPTILS--RC-QIFDFKRITIKDIKEHLAGIAVKEGIKFED  189 (367)
T ss_pred             eEEEEEeCCcccCCHHHHh--cc-eeEecCCccHHHHHHHHHHHHHHcCCCCCH
Confidence            6777888888999999988  76 368999999999888888777655544433

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.57  E-value=3.9e-14  Score=151.38  Aligned_cols=159  Identities=18%  Similarity=0.340  Sum_probs=119.4

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------------  267 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--------------  267 (455)
                      .|.+|++++|++.+++.+.+.+..            ...+..|||+||||||||++|+++|+.+++              
T Consensus        11 rP~~f~divGq~~v~~~L~~~i~~------------~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~   78 (527)
T PRK14969         11 RPKSFSELVGQEHVVRALTNALEQ------------QRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSA   78 (527)
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHHc------------CCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHH
Confidence            478999999999999888776652            123567999999999999999999999965              


Q ss_pred             ----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          268 ----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       268 ----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                +++.++.+.-.+-..+++++...      ....|++|||+|.+..                ...+.||..
T Consensus        79 C~~i~~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~----------------~a~naLLK~  142 (527)
T PRK14969         79 CLEIDSGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSK----------------SAFNAMLKT  142 (527)
T ss_pred             HHHHhcCCCCceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCH----------------HHHHHHHHH
Confidence                      34555544333445677766543      2357999999998732                345678888


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF  395 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~  395 (455)
                      ++..    ++.+++|++|+.+..+.+.+++  |+ ..++|..++.++....+...+..++....
T Consensus       143 LEep----p~~~~fIL~t~d~~kil~tI~S--Rc-~~~~f~~l~~~~i~~~L~~il~~egi~~~  199 (527)
T PRK14969        143 LEEP----PEHVKFILATTDPQKIPVTVLS--RC-LQFNLKQMPPPLIVSHLQHILEQENIPFD  199 (527)
T ss_pred             HhCC----CCCEEEEEEeCChhhCchhHHH--HH-HHHhcCCCCHHHHHHHHHHHHHHcCCCCC
Confidence            7763    3567788888888888888888  87 68999999999988888887765544433

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.57  E-value=6.2e-14  Score=149.73  Aligned_cols=160  Identities=16%  Similarity=0.307  Sum_probs=119.0

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      -.|.+|++++|++.+++.+.+.+.            ....+++|||+||||||||++|+++|+.+.+             
T Consensus        10 yRP~~F~dIIGQe~iv~~L~~aI~------------~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~   77 (605)
T PRK05896         10 YRPHNFKQIIGQELIKKILVNAIL------------NNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCS   77 (605)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHH------------cCCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccH
Confidence            358999999999999888877653            1123568999999999999999999999842             


Q ss_pred             -----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          268 -----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       268 -----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                 +++.++..+..+-..++.+....      ....|++|||+|.+-.                ...+.|+.
T Consensus        78 sCr~i~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~----------------~A~NaLLK  141 (605)
T PRK05896         78 VCESINTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLST----------------SAWNALLK  141 (605)
T ss_pred             HHHHHHcCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCH----------------HHHHHHHH
Confidence                       45555544333445666665433      2356999999998732                23467888


Q ss_pred             hhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch
Q 047029          331 FVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF  395 (455)
Q Consensus       331 ~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~  395 (455)
                      .|+.-    ++..++|++|+.+..|.+++++  |+. .++|..++.++....+...+...+....
T Consensus       142 tLEEP----p~~tvfIL~Tt~~~KLl~TI~S--Rcq-~ieF~~Ls~~eL~~~L~~il~kegi~Is  199 (605)
T PRK05896        142 TLEEP----PKHVVFIFATTEFQKIPLTIIS--RCQ-RYNFKKLNNSELQELLKSIAKKEKIKIE  199 (605)
T ss_pred             HHHhC----CCcEEEEEECCChHhhhHHHHh--hhh-hcccCCCCHHHHHHHHHHHHHHcCCCCC
Confidence            77753    3467888888889999999998  874 7999999999988888887765544343

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.56  E-value=7.5e-14  Score=149.80  Aligned_cols=164  Identities=19%  Similarity=0.282  Sum_probs=119.0

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD------------  268 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~------------  268 (455)
                      ..|.+|++|+|++.+++.|.+.+..           | ..+..|||+||||||||++|+++|+.+.+.            
T Consensus        10 yRP~sf~dIiGQe~v~~~L~~ai~~-----------~-ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~   77 (624)
T PRK14959         10 YRPQTFAEVAGQETVKAILSRAAQE-----------N-RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCE   77 (624)
T ss_pred             hCCCCHHHhcCCHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccH
Confidence            4689999999999998877766541           1 224589999999999999999999999652            


Q ss_pred             ------------EEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          269 ------------IYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       269 ------------v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                  ++.++...-.+-..++.+....      ....||||||+|.+..                ...+.|+.
T Consensus        78 sC~~i~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~----------------~a~naLLk  141 (624)
T PRK14959         78 QCRKVTQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTR----------------EAFNALLK  141 (624)
T ss_pred             HHHHHhcCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCH----------------HHHHHHHH
Confidence                        5555543222334455443222      2467999999998732                34567888


Q ss_pred             hhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHH
Q 047029          331 FVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIE  399 (455)
Q Consensus       331 ~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~  399 (455)
                      .|+.-    ....++|++||.+..+.+.+++  |+ .+|+|..++.++....+...+..++....++..
T Consensus       142 ~LEEP----~~~~ifILaTt~~~kll~TI~S--Rc-q~i~F~pLs~~eL~~~L~~il~~egi~id~eal  203 (624)
T PRK14959        142 TLEEP----PARVTFVLATTEPHKFPVTIVS--RC-QHFTFTRLSEAGLEAHLTKVLGREGVDYDPAAV  203 (624)
T ss_pred             Hhhcc----CCCEEEEEecCChhhhhHHHHh--hh-hccccCCCCHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            87753    2457888999999999999888  87 478999999999988888877665544444433

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.56  E-value=2.5e-14  Score=160.48  Aligned_cols=157  Identities=18%  Similarity=0.222  Sum_probs=110.2

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEE
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYD  271 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~  271 (455)
                      .|..++.++|.++..+++++.+.    +         ..+.+++|+||||||||++|+++|+.+          +.+++.
T Consensus       182 r~~~ld~~iGr~~ei~~~i~~l~----r---------~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~  248 (852)
T TIGR03345       182 REGKIDPVLGRDDEIRQMIDILL----R---------RRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLS  248 (852)
T ss_pred             cCCCCCcccCCHHHHHHHHHHHh----c---------CCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEE
Confidence            35678999998887666655443    1         225689999999999999999999987          356777


Q ss_pred             EeccccCC--------hHHHHHHHHhh---CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCC
Q 047029          272 MELASLRS--------NSDLRRLLVST---GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCG  340 (455)
Q Consensus       272 l~~~~~~~--------~~~l~~ll~~~---~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~  340 (455)
                      ++++.+..        ...+++++...   ..+.|||||||+.+...++..       +. ...-+-|+..+.    +  
T Consensus       249 l~l~~l~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~-------~~-~d~~n~Lkp~l~----~--  314 (852)
T TIGR03345       249 LDLGLLQAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQA-------GQ-GDAANLLKPALA----R--  314 (852)
T ss_pred             eehhhhhcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCcc-------cc-ccHHHHhhHHhh----C--
Confidence            87776531        25677777655   357899999999986521110       00 111112233322    2  


Q ss_pred             CceEEEEEcCCCC-----CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          341 DERIIVFTTNYKE-----RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       341 ~~~ivI~TTN~~~-----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      +++.+|+||+..+     .+|+||.|  ||. .|.++.|+.++...|++.+..
T Consensus       315 G~l~~IgaTT~~e~~~~~~~d~AL~r--Rf~-~i~v~eps~~~~~~iL~~~~~  364 (852)
T TIGR03345       315 GELRTIAATTWAEYKKYFEKDPALTR--RFQ-VVKVEEPDEETAIRMLRGLAP  364 (852)
T ss_pred             CCeEEEEecCHHHHhhhhhccHHHHH--hCe-EEEeCCCCHHHHHHHHHHHHH
Confidence            5688888888643     48999999  995 799999999999999765543

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.

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.56  E-value=1e-13  Score=150.80  Aligned_cols=159  Identities=21%  Similarity=0.331  Sum_probs=118.6

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD------------  268 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~------------  268 (455)
                      ..|.+|++++|++.+++.+.+.+..            ...+..||||||||||||++|+++|+.+.+.            
T Consensus        12 yRP~~f~dIiGQe~~v~~L~~aI~~------------~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C   79 (725)
T PRK07133         12 YRPKTFDDIVGQDHIVQTLKNIIKS------------NKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQEC   79 (725)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHH
Confidence            4689999999999999888777752            1336689999999999999999999988542            


Q ss_pred             ---------EEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhh
Q 047029          269 ---------IYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVD  333 (455)
Q Consensus       269 ---------v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ld  333 (455)
                               ++.++..+-.+...++++....      ....|++|||+|.+..                ...+.||..|+
T Consensus        80 ~~~~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~----------------~A~NALLKtLE  143 (725)
T PRK07133         80 IENVNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSK----------------SAFNALLKTLE  143 (725)
T ss_pred             HHhhcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCH----------------HHHHHHHHHhh
Confidence                     2333332222345566665443      2457999999998732                34667888877


Q ss_pred             cccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc
Q 047029          334 GLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM  394 (455)
Q Consensus       334 g~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l  394 (455)
                      .-    ++.+++|++|+.++.|.+++++  |+ .+++|..++.++....+...+...+...
T Consensus       144 EP----P~~tifILaTte~~KLl~TI~S--Rc-q~ieF~~L~~eeI~~~L~~il~kegI~i  197 (725)
T PRK07133        144 EP----PKHVIFILATTEVHKIPLTILS--RV-QRFNFRRISEDEIVSRLEFILEKENISY  197 (725)
T ss_pred             cC----CCceEEEEEcCChhhhhHHHHh--hc-eeEEccCCCHHHHHHHHHHHHHHcCCCC
Confidence            53    3567888888899999999998  88 4899999999998888887766554433

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

Probab=99.56  E-value=2.5e-14  Score=138.75  Aligned_cols=161  Identities=24%  Similarity=0.307  Sum_probs=115.5

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC------cEEEEe
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF------DIYDME  273 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~------~v~~l~  273 (455)
                      --.|.+|++++|++.+.+.+.+.+..             .--..||||||||||||+.|.|+|.++..      .+..++
T Consensus        29 KYrPkt~de~~gQe~vV~~L~~a~~~-------------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~ln   95 (346)
T KOG0989|consen   29 KYRPKTFDELAGQEHVVQVLKNALLR-------------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELN   95 (346)
T ss_pred             HhCCCcHHhhcchHHHHHHHHHHHhh-------------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhc
Confidence            35689999999999999988887763             11347999999999999999999999965      333444


Q ss_pred             ccccCChH-------HHHHHHHhh--------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc
Q 047029          274 LASLRSNS-------DLRRLLVST--------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS  338 (455)
Q Consensus       274 ~~~~~~~~-------~l~~ll~~~--------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~  338 (455)
                      .++-.+.+       ...++....        +...|++|||+|.+.                +...+.|...||...  
T Consensus        96 aSderGisvvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmt----------------sdaq~aLrr~mE~~s--  157 (346)
T KOG0989|consen   96 ASDERGISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMT----------------SDAQAALRRTMEDFS--  157 (346)
T ss_pred             ccccccccchhhhhcCHHHHhhccccccCCCCCcceEEEEechhhhh----------------HHHHHHHHHHHhccc--
Confidence            44432211       122222111        122799999999874                255677888888742  


Q ss_pred             CCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          339 CGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       339 ~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                        ....+|+.||+.+.|.+.+..  |+. ++.|+....+....-++.....++....+
T Consensus       158 --~~trFiLIcnylsrii~pi~S--RC~-KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~  210 (346)
T KOG0989|consen  158 --RTTRFILICNYLSRIIRPLVS--RCQ-KFRFKKLKDEDIVDRLEKIASKEGVDIDD  210 (346)
T ss_pred             --cceEEEEEcCChhhCChHHHh--hHH-HhcCCCcchHHHHHHHHHHHHHhCCCCCH
Confidence              457899999999999999999  984 68888777766666666666666555544

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.56  E-value=5e-14  Score=138.06  Aligned_cols=158  Identities=22%  Similarity=0.215  Sum_probs=106.1

Q ss_pred             HHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHH----------
Q 047029          215 LKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLR----------  284 (455)
Q Consensus       215 ~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~----------  284 (455)
                      ..+++++.+..++..           .+.+||+||||||||++|+++|+.+|.+++.+++..-....++.          
T Consensus         6 ~~~~l~~~~l~~l~~-----------g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~~~~~~dllg~~~~~~~~~   74 (262)
T TIGR02640         6 AVKRVTSRALRYLKS-----------GYPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAGYTRKK   74 (262)
T ss_pred             HHHHHHHHHHHHHhc-----------CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCccCCHHHHhhhhcccchhh
Confidence            344555555555543           46899999999999999999999999999999876532211110          


Q ss_pred             -----------------------HHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-cc--
Q 047029          285 -----------------------RLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-SS--  338 (455)
Q Consensus       285 -----------------------~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~~--  338 (455)
                                             .++.....+.+|+||||+.+-+                .+.+.|+..|+... .-  
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~g~l~~A~~~g~~lllDEi~r~~~----------------~~q~~Ll~~Le~~~~~i~~  138 (262)
T TIGR02640        75 VHDQFIHNVVKLEDIVRQNWVDNRLTLAVREGFTLVYDEFTRSKP----------------ETNNVLLSVFEEGVLELPG  138 (262)
T ss_pred             HHHHHHHHhhhhhcccceeecCchHHHHHHcCCEEEEcchhhCCH----------------HHHHHHHHHhcCCeEEccC
Confidence                                   1122234568999999998632                34556666665321 00  


Q ss_pred             ---------CCCceEEEEEcCCC-----CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhc
Q 047029          339 ---------CGDERIIVFTTNYK-----ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIK  403 (455)
Q Consensus       339 ---------~~~~~ivI~TTN~~-----~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~  403 (455)
                               ...+..||+|+|..     ..++++|++  || ..+.+++|+.++..+|++...+.. ....+.+.+++.
T Consensus       139 ~~~~~~~i~~~~~frvIaTsN~~~~~g~~~l~~aL~~--R~-~~i~i~~P~~~~e~~Il~~~~~~~-~~~~~~iv~~~~  213 (262)
T TIGR02640       139 KRGTSRYVDVHPEFRVIFTSNPVEYAGVHETQDALLD--RL-ITIFMDYPDIDTETAILRAKTDVA-EDSAATIVRLVR  213 (262)
T ss_pred             CCCCCceEecCCCCEEEEeeCCccccceecccHHHHh--hc-EEEECCCCCHHHHHHHHHHhhCCC-HHHHHHHHHHHH
Confidence                     11245689999975     357899999  98 789999999999999998876432 223334444433

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).

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.56  E-value=7.1e-14  Score=151.00  Aligned_cols=160  Identities=19%  Similarity=0.277  Sum_probs=120.9

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------------  267 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--------------  267 (455)
                      .|.+|++|+|++++++.|.+.+..            ...+..||||||+|||||++|+++|+.+++              
T Consensus        11 RP~~f~~iiGq~~v~~~L~~~i~~------------~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~   78 (576)
T PRK14965         11 RPQTFSDLTGQEHVSRTLQNAIDT------------GRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPP   78 (576)
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHH
Confidence            478999999999999888876652            123668999999999999999999999853              


Q ss_pred             ----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          268 ----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       268 ----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                +++.++..+..+-.+++.+....      ....|++|||+|.+..                ...+.||..
T Consensus        79 c~~i~~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~----------------~a~naLLk~  142 (576)
T PRK14965         79 CVEITEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLST----------------NAFNALLKT  142 (576)
T ss_pred             HHHHhcCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCH----------------HHHHHHHHH
Confidence                      24555544333445666665443      2357999999998732                346778888


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      |+.-    ++.+++|++||.+++|.+.+++  |+ .+++|..++.++....+...+..++....+
T Consensus       143 LEep----p~~~~fIl~t~~~~kl~~tI~S--Rc-~~~~f~~l~~~~i~~~L~~i~~~egi~i~~  200 (576)
T PRK14965        143 LEEP----PPHVKFIFATTEPHKVPITILS--RC-QRFDFRRIPLQKIVDRLRYIADQEGISISD  200 (576)
T ss_pred             HHcC----CCCeEEEEEeCChhhhhHHHHH--hh-hhhhcCCCCHHHHHHHHHHHHHHhCCCCCH
Confidence            8753    3568888899999999999998  87 589999999999888888777666544433

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=99.56  E-value=1.1e-13  Score=146.40  Aligned_cols=159  Identities=19%  Similarity=0.253  Sum_probs=116.9

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh-------
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN-------  280 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~-------  280 (455)
                      +-.|..++|++|++.+.--.       -.|-...+-+.|+||||+|||+++++||..||..|+.+.++.+.+.       
T Consensus       412 DHYgm~dVKeRILEfiAV~k-------Lrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGHR  484 (906)
T KOG2004|consen  412 DHYGMEDVKERILEFIAVGK-------LRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGHR  484 (906)
T ss_pred             cccchHHHHHHHHHHHHHHh-------hcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhcccc
Confidence            45678899999999775211       1133334568899999999999999999999999999998876433       


Q ss_pred             --------HHHHHHHHhhC-CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccC-----------C
Q 047029          281 --------SDLRRLLVSTG-NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSC-----------G  340 (455)
Q Consensus       281 --------~~l~~ll~~~~-~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~-----------~  340 (455)
                              ..+.+.|.... ..-+++|||||.+..            +....--+.||+.+|--....           -
T Consensus       485 RTYVGAMPGkiIq~LK~v~t~NPliLiDEvDKlG~------------g~qGDPasALLElLDPEQNanFlDHYLdVp~DL  552 (906)
T KOG2004|consen  485 RTYVGAMPGKIIQCLKKVKTENPLILIDEVDKLGS------------GHQGDPASALLELLDPEQNANFLDHYLDVPVDL  552 (906)
T ss_pred             eeeeccCChHHHHHHHhhCCCCceEEeehhhhhCC------------CCCCChHHHHHHhcChhhccchhhhccccccch
Confidence                    45555555553 456899999999842            111122345555555221111           1


Q ss_pred             CceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          341 DERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       341 ~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      ..+++|+|.|..+.|+++|+.  ||. .|+++-...++...|+++||-
T Consensus       553 SkVLFicTAN~idtIP~pLlD--RME-vIelsGYv~eEKv~IA~~yLi  597 (906)
T KOG2004|consen  553 SKVLFICTANVIDTIPPPLLD--RME-VIELSGYVAEEKVKIAERYLI  597 (906)
T ss_pred             hheEEEEeccccccCChhhhh--hhh-eeeccCccHHHHHHHHHHhhh
Confidence            358999999999999999999  995 699999999999999999985

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.55  E-value=1.5e-13  Score=141.66  Aligned_cols=156  Identities=20%  Similarity=0.250  Sum_probs=113.3

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc---------------
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD---------------  268 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~---------------  268 (455)
                      ..|++|+|++.+++.|.+.+.....   .+...+...+.+|||+||||+|||++|+++|+.+.+.               
T Consensus         2 ~~f~~IiGq~~~~~~L~~~i~~~~~---~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~   78 (394)
T PRK07940          2 SVWDDLVGQEAVVAELRAAARAARA---DVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRT   78 (394)
T ss_pred             ChhhhccChHHHHHHHHHHHHhccc---cccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHH
Confidence            3589999999999998888764322   2344455567899999999999999999999987543               


Q ss_pred             --------EEEEeccc-cCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhh
Q 047029          269 --------IYDMELAS-LRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVD  333 (455)
Q Consensus       269 --------v~~l~~~~-~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ld  333 (455)
                              ++.+.... ..+-.++++++....      ...|++|||+|.+-.                ...+.||..|+
T Consensus        79 ~~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~----------------~aanaLLk~LE  142 (394)
T PRK07940         79 VLAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTE----------------RAANALLKAVE  142 (394)
T ss_pred             HhcCCCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCH----------------HHHHHHHHHhh
Confidence                    22232221 123456677765432      356999999998732                23466888876


Q ss_pred             cccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHH
Q 047029          334 GLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFN  385 (455)
Q Consensus       334 g~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~  385 (455)
                      .-    +.+.++|++|+.++.|.|++++  |+ ..++|+.|+.++....+..
T Consensus       143 ep----~~~~~fIL~a~~~~~llpTIrS--Rc-~~i~f~~~~~~~i~~~L~~  187 (394)
T PRK07940        143 EP----PPRTVWLLCAPSPEDVLPTIRS--RC-RHVALRTPSVEAVAEVLVR  187 (394)
T ss_pred             cC----CCCCeEEEEECChHHChHHHHh--hC-eEEECCCCCHHHHHHHHHH
Confidence            53    2456777777779999999999  88 6899999999998777653

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.55  E-value=3.6e-14  Score=159.58  Aligned_cols=156  Identities=18%  Similarity=0.230  Sum_probs=112.6

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEEE
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYDM  272 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~l  272 (455)
                      |..+|.++|.++..+.+++.|..             ..+.+++|+||||||||++|+++|..+          +.+++.+
T Consensus       174 ~~~l~~vigr~~ei~~~i~iL~r-------------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l  240 (857)
T PRK10865        174 QGKLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL  240 (857)
T ss_pred             cCCCCcCCCCHHHHHHHHHHHhc-------------CCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEE
Confidence            56789999998876666665531             225689999999999999999999998          7889888


Q ss_pred             eccccCC--------hHHHHHHHHhh---CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCC
Q 047029          273 ELASLRS--------NSDLRRLLVST---GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGD  341 (455)
Q Consensus       273 ~~~~~~~--------~~~l~~ll~~~---~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~  341 (455)
                      +++.+..        ...++.+|...   ..++|||||||+.+...+.     +.+.......   |...+    .  .+
T Consensus       241 ~l~~l~ag~~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~-----~~~~~d~~~~---lkp~l----~--~g  306 (857)
T PRK10865        241 DMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGK-----ADGAMDAGNM---LKPAL----A--RG  306 (857)
T ss_pred             ehhhhhhccchhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCC-----CccchhHHHH---hcchh----h--cC
Confidence            8876521        23577777553   3578999999999965211     0011111111   22221    1  26


Q ss_pred             ceEEEEEcCCCC-----CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          342 ERIIVFTTNYKE-----RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       342 ~~ivI~TTN~~~-----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      ++.+|++|+..+     .+|+|+.|  ||+ .|.++.|+.+++..+++....
T Consensus       307 ~l~~IgaTt~~e~r~~~~~d~al~r--Rf~-~i~v~eP~~~~~~~iL~~l~~  355 (857)
T PRK10865        307 ELHCVGATTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAILRGLKE  355 (857)
T ss_pred             CCeEEEcCCCHHHHHHhhhcHHHHh--hCC-EEEeCCCCHHHHHHHHHHHhh
Confidence            788999998776     48999999  997 589999999999998886654

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.54  E-value=1.4e-13  Score=131.22  Aligned_cols=173  Identities=16%  Similarity=0.223  Sum_probs=109.7

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      +.++.+.+||+++.  +..+.+++.+..++..         ..+++++|+||||||||++++++++++   +.+++.+++
T Consensus         6 ~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~---------~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~   74 (226)
T TIGR03420         6 VGLPDDPTFDNFYA--GGNAELLAALRQLAAG---------KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPL   74 (226)
T ss_pred             CCCCCchhhcCcCc--CCcHHHHHHHHHHHhc---------CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeH
Confidence            34556678999883  2334455555544321         225689999999999999999999987   467888888


Q ss_pred             cccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcC-CCC
Q 047029          275 ASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTN-YKE  353 (455)
Q Consensus       275 ~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN-~~~  353 (455)
                      ..+..  .....+.......+|+|||+|.+..             .. .....|...++.....  + ..+|+|++ .+.
T Consensus        75 ~~~~~--~~~~~~~~~~~~~lLvIDdi~~l~~-------------~~-~~~~~L~~~l~~~~~~--~-~~iIits~~~~~  135 (226)
T TIGR03420        75 AELAQ--ADPEVLEGLEQADLVCLDDVEAIAG-------------QP-EWQEALFHLYNRVREA--G-GRLLIAGRAAPA  135 (226)
T ss_pred             HHHHH--hHHHHHhhcccCCEEEEeChhhhcC-------------Ch-HHHHHHHHHHHHHHHc--C-CeEEEECCCChH
Confidence            77642  2234444445567999999998732             10 1123444444443222  2 24555665 343


Q ss_pred             CCC---ccccCCCce--eEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          354 RLD---PALLRPGRM--DMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       354 ~Ld---~allRpGR~--d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                      .++   +.+.+  |+  ..+|.++.|+.+++..+++.+....+..+.++..+.+
T Consensus       136 ~~~~~~~~L~~--r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~l~~L  187 (226)
T TIGR03420       136 QLPLRLPDLRT--RLAWGLVFQLPPLSDEEKIAALQSRAARRGLQLPDEVADYL  187 (226)
T ss_pred             HCCcccHHHHH--HHhcCeeEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            332   67776  55  5789999999999999998876544444444443333

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.54  E-value=2.2e-13  Score=144.06  Aligned_cols=162  Identities=19%  Similarity=0.316  Sum_probs=118.0

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      ..|.+|++++|++.+.+.+.+.+..            ...+..||||||||+|||++|+++|+.+++             
T Consensus        10 yRP~~f~diiGq~~i~~~L~~~i~~------------~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~   77 (486)
T PRK14953         10 YRPKFFKEVIGQEIVVRILKNAVKL------------QRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCE   77 (486)
T ss_pred             hCCCcHHHccChHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccH
Confidence            4588999999999999888777641            223567999999999999999999999863             


Q ss_pred             -----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          268 -----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       268 -----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                 +++.++.++-.+-..++.+....      ..+.|++|||+|.+..                ...+.|+.
T Consensus        78 nc~~i~~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~----------------~a~naLLk  141 (486)
T PRK14953         78 NCVEIDKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTK----------------EAFNALLK  141 (486)
T ss_pred             HHHHHhcCCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCH----------------HHHHHHHH
Confidence                       34445443333334455554332      2467999999997632                23566777


Q ss_pred             hhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH
Q 047029          331 FVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE  397 (455)
Q Consensus       331 ~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e  397 (455)
                      .++..    +...++|++|+.++.+.+++.+  |+. .+.+..++.++....+...+...+....++
T Consensus       142 ~LEep----p~~~v~Il~tt~~~kl~~tI~S--Rc~-~i~f~~ls~~el~~~L~~i~k~egi~id~~  201 (486)
T PRK14953        142 TLEEP----PPRTIFILCTTEYDKIPPTILS--RCQ-RFIFSKPTKEQIKEYLKRICNEEKIEYEEK  201 (486)
T ss_pred             HHhcC----CCCeEEEEEECCHHHHHHHHHH--hce-EEEcCCCCHHHHHHHHHHHHHHcCCCCCHH
Confidence            77653    3456777778888889999988  774 799999999999988888877665444443

>PRK08727 hypothetical protein; Validated

Probab=99.54  E-value=2.7e-13  Score=130.70  Aligned_cols=172  Identities=18%  Similarity=0.270  Sum_probs=110.7

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      +.++...+||+.++.+.-   ....+.....        | .+...++||||+|||||+|++|+|+++   +..+..+..
T Consensus        10 ~~~~~~~~f~~f~~~~~n---~~~~~~~~~~--------~-~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~   77 (233)
T PRK08727         10 LRYPSDQRFDSYIAAPDG---LLAQLQALAA--------G-QSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPL   77 (233)
T ss_pred             CCCCCcCChhhccCCcHH---HHHHHHHHHh--------c-cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeH
Confidence            445566789998866542   1222221111        1 123569999999999999999998876   566667766


Q ss_pred             cccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcC-CCC
Q 047029          275 ASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTN-YKE  353 (455)
Q Consensus       275 ~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN-~~~  353 (455)
                      ....  ..+.+.+....+..+|+|||++.+..           .......   +++.++.....   +.-+|+|+| .|.
T Consensus        78 ~~~~--~~~~~~~~~l~~~dlLiIDDi~~l~~-----------~~~~~~~---lf~l~n~~~~~---~~~vI~ts~~~p~  138 (233)
T PRK08727         78 QAAA--GRLRDALEALEGRSLVALDGLESIAG-----------QREDEVA---LFDFHNRARAA---GITLLYTARQMPD  138 (233)
T ss_pred             HHhh--hhHHHHHHHHhcCCEEEEeCcccccC-----------ChHHHHH---HHHHHHHHHHc---CCeEEEECCCChh
Confidence            5532  34556666667778999999998742           1112233   33444333221   233566665 666


Q ss_pred             CC---CccccCCCce--eEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          354 RL---DPALLRPGRM--DMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       354 ~L---d~allRpGR~--d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                      .+   +|+|.+  ||  ..+++++.|+.+++..+++......+..+.+++...+
T Consensus       139 ~l~~~~~dL~S--Rl~~~~~~~l~~~~~e~~~~iL~~~a~~~~l~l~~e~~~~L  190 (233)
T PRK08727        139 GLALVLPDLRS--RLAQCIRIGLPVLDDVARAAVLRERAQRRGLALDEAAIDWL  190 (233)
T ss_pred             hhhhhhHHHHH--HHhcCceEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            54   789998  86  5789999999999999999876555444555444443

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.54  E-value=3.3e-13  Score=143.20  Aligned_cols=160  Identities=23%  Similarity=0.310  Sum_probs=120.3

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC--------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK--------------  266 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~--------------  266 (455)
                      -.|.+|++++|++.+++.+...+..            ...+..||||||||+|||++|+++|+.+.              
T Consensus         8 yRP~~fdeiiGqe~v~~~L~~~I~~------------grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~   75 (535)
T PRK08451          8 YRPKHFDELIGQESVSKTLSLALDN------------NRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCI   75 (535)
T ss_pred             HCCCCHHHccCcHHHHHHHHHHHHc------------CCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccH
Confidence            3589999999999999888777641            23466899999999999999999999873              


Q ss_pred             ----------CcEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          267 ----------FDIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       267 ----------~~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                .+++.++.++-.+-..++.+....      ....|++|||+|.+..                ...+.||.
T Consensus        76 ~C~~~~~~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~----------------~A~NALLK  139 (535)
T PRK08451         76 QCQSALENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTK----------------EAFNALLK  139 (535)
T ss_pred             HHHHHhhcCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCH----------------HHHHHHHH
Confidence                      235555544323446677776442      2357999999998732                45667888


Q ss_pred             hhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch
Q 047029          331 FVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF  395 (455)
Q Consensus       331 ~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~  395 (455)
                      .|+..    +....+|++|+.+.+|.++++.  |+ .+++|..++.++....+...+..++....
T Consensus       140 ~LEEp----p~~t~FIL~ttd~~kL~~tI~S--Rc-~~~~F~~Ls~~ei~~~L~~Il~~EGi~i~  197 (535)
T PRK08451        140 TLEEP----PSYVKFILATTDPLKLPATILS--RT-QHFRFKQIPQNSIISHLKTILEKEGVSYE  197 (535)
T ss_pred             HHhhc----CCceEEEEEECChhhCchHHHh--hc-eeEEcCCCCHHHHHHHHHHHHHHcCCCCC
Confidence            87764    2456777888888999999999  86 68999999999988888877776654443

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.53  E-value=3e-13  Score=142.08  Aligned_cols=160  Identities=19%  Similarity=0.254  Sum_probs=115.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      ..|.+|++++|++.+++.+.+.+..            ...+..||||||||+|||++|+++|+.+..             
T Consensus        11 yRP~~~~diiGq~~~v~~L~~~i~~------------~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c   78 (451)
T PRK06305         11 YRPQTFSEILGQDAVVAVLKNALRF------------NRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQC   78 (451)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc------------CCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCccc
Confidence            3579999999999998877776641            233568999999999999999999998843             


Q ss_pred             ------------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhh
Q 047029          268 ------------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLL  329 (455)
Q Consensus       268 ------------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL  329 (455)
                                  +++.++.....+-..++.+....      ..+.|++|||+|.+..                ...+.|+
T Consensus        79 ~~C~~i~~~~~~d~~~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~----------------~~~n~LL  142 (451)
T PRK06305         79 ASCKEISSGTSLDVLEIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTK----------------EAFNSLL  142 (451)
T ss_pred             HHHHHHhcCCCCceEEeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCH----------------HHHHHHH
Confidence                        34444433222334454433222      3578999999998732                2356678


Q ss_pred             hhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch
Q 047029          330 NFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF  395 (455)
Q Consensus       330 ~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~  395 (455)
                      ..|+.-    ++..++|++||.+..|.+++.+  |+ ..++|..++.++....+...+...+....
T Consensus       143 k~lEep----~~~~~~Il~t~~~~kl~~tI~s--Rc-~~v~f~~l~~~el~~~L~~~~~~eg~~i~  201 (451)
T PRK06305        143 KTLEEP----PQHVKFFLATTEIHKIPGTILS--RC-QKMHLKRIPEETIIDKLALIAKQEGIETS  201 (451)
T ss_pred             HHhhcC----CCCceEEEEeCChHhcchHHHH--hc-eEEeCCCCCHHHHHHHHHHHHHHcCCCCC
Confidence            877763    2457788888988999999998  88 46999999999988887777655443343

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.53  E-value=2.4e-13  Score=131.20  Aligned_cols=175  Identities=15%  Similarity=0.230  Sum_probs=106.3

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      +.+++..+||+.+-.  .-+..+..+..+...+         ..+.++||||||||||||++++|+++   +..+..+.+
T Consensus        13 ~~~~~~~~fd~f~~~--~n~~a~~~l~~~~~~~---------~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~   81 (235)
T PRK08084         13 LYLPDDETFASFYPG--DNDSLLAALQNALRQE---------HSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPL   81 (235)
T ss_pred             CCCCCcCCccccccC--ccHHHHHHHHHHHhCC---------CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEH
Confidence            345566789998743  1223444454433221         13589999999999999999999986   445666665


Q ss_pred             cccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC
Q 047029          275 ASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER  354 (455)
Q Consensus       275 ~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~  354 (455)
                      .....  ...+++....+-.+|+||||+.+..           ....+..   |.+.++..... +...+++.+++.|..
T Consensus        82 ~~~~~--~~~~~~~~~~~~dlliiDdi~~~~~-----------~~~~~~~---lf~l~n~~~e~-g~~~li~ts~~~p~~  144 (235)
T PRK08084         82 DKRAW--FVPEVLEGMEQLSLVCIDNIECIAG-----------DELWEMA---IFDLYNRILES-GRTRLLITGDRPPRQ  144 (235)
T ss_pred             HHHhh--hhHHHHHHhhhCCEEEEeChhhhcC-----------CHHHHHH---HHHHHHHHHHc-CCCeEEEeCCCChHH
Confidence            54321  1223333333457999999998732           1122233   33334333322 112455545556555


Q ss_pred             ---CCccccCCCcee--EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          355 ---LDPALLRPGRMD--MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       355 ---Ld~allRpGR~d--~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                         +.|.|.+  |+.  ..+++..|+.+++.++++......+..+.+++...+
T Consensus       145 l~~~~~~L~S--Rl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~~l~~~v~~~L  195 (235)
T PRK08084        145 LNLGLPDLAS--RLDWGQIYKLQPLSDEEKLQALQLRARLRGFELPEDVGRFL  195 (235)
T ss_pred             cCcccHHHHH--HHhCCceeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence               5789999  875  889999999999999988755444444444444443

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.52  E-value=2e-13  Score=143.86  Aligned_cols=181  Identities=17%  Similarity=0.252  Sum_probs=117.3

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEE
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDM  272 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l  272 (455)
                      ..+++..+||+++..+.-+. ....+..+...+      |.. .++++||||||||||+|++|+|+++     +..++.+
T Consensus       113 ~~l~~~~tfd~fv~g~~n~~-a~~~~~~~~~~~------~~~-~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi  184 (450)
T PRK00149        113 SPLNPKYTFDNFVVGKSNRL-AHAAALAVAENP------GKA-YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYV  184 (450)
T ss_pred             cCCCCCCcccccccCCCcHH-HHHHHHHHHhCc------Ccc-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEE
Confidence            35677779999664332221 233333333322      222 3579999999999999999999998     5668888


Q ss_pred             eccccCCh-------HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEE
Q 047029          273 ELASLRSN-------SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERII  345 (455)
Q Consensus       273 ~~~~~~~~-------~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~iv  345 (455)
                      ++..+...       .....+.....+..+|+||||+.+..              ...+...|+..++.+...  +..+|
T Consensus       185 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~--------------~~~~~~~l~~~~n~l~~~--~~~ii  248 (450)
T PRK00149        185 TSEKFTNDFVNALRNNTMEEFKEKYRSVDVLLIDDIQFLAG--------------KERTQEEFFHTFNALHEA--GKQIV  248 (450)
T ss_pred             EHHHHHHHHHHHHHcCcHHHHHHHHhcCCEEEEehhhhhcC--------------CHHHHHHHHHHHHHHHHC--CCcEE
Confidence            77654211       11222333445678999999998742              112334556666555443  22344


Q ss_pred             EEEcCCCCC---CCccccCCCcee--EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhcc
Q 047029          346 VFTTNYKER---LDPALLRPGRMD--MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKE  404 (455)
Q Consensus       346 I~TTN~~~~---Ld~allRpGR~d--~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~  404 (455)
                      |.++..|..   +++++..  ||.  ..+++..|+.+++..+++..+...+..+.+++...+.+
T Consensus       249 its~~~p~~l~~l~~~l~S--Rl~~gl~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~  310 (450)
T PRK00149        249 LTSDRPPKELPGLEERLRS--RFEWGLTVDIEPPDLETRIAILKKKAEEEGIDLPDEVLEFIAK  310 (450)
T ss_pred             EECCCCHHHHHHHHHHHHh--HhcCCeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHc
Confidence            444445544   7788888  885  68999999999999999999887666677776666654

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.52  E-value=1.9e-13  Score=141.74  Aligned_cols=160  Identities=16%  Similarity=0.286  Sum_probs=114.0

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      -.|.+|++++|++.+++.|...+..           | ..+..||||||||||||++|+++|+.+.+             
T Consensus        10 ~RP~~~~eiiGq~~~~~~L~~~~~~-----------~-~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~   77 (397)
T PRK14955         10 YRPKKFADITAQEHITRTIQNSLRM-----------G-RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEV   77 (397)
T ss_pred             cCCCcHhhccChHHHHHHHHHHHHh-----------C-CcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccC
Confidence            3588999999999999887666541           1 23567999999999999999999999965             


Q ss_pred             -------------------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcch
Q 047029          268 -------------------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQ  322 (455)
Q Consensus       268 -------------------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~  322 (455)
                                         +++.++.....+-.+++++....      ....|++|||+|.+..                
T Consensus        78 ~~~c~~c~~c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~----------------  141 (397)
T PRK14955         78 TEPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSI----------------  141 (397)
T ss_pred             CCCCCCCHHHHHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCH----------------
Confidence                               23333332222345566655444      2457999999998732                


Q ss_pred             hhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch
Q 047029          323 VTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF  395 (455)
Q Consensus       323 ~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~  395 (455)
                      ...+.|+..++..    ++..++|++|+.+..+-+++.+  |+. .++|..++.++....+...+...+....
T Consensus       142 ~~~~~LLk~LEep----~~~t~~Il~t~~~~kl~~tl~s--R~~-~v~f~~l~~~ei~~~l~~~~~~~g~~i~  207 (397)
T PRK14955        142 AAFNAFLKTLEEP----PPHAIFIFATTELHKIPATIAS--RCQ-RFNFKRIPLEEIQQQLQGICEAEGISVD  207 (397)
T ss_pred             HHHHHHHHHHhcC----CCCeEEEEEeCChHHhHHHHHH--HHH-HhhcCCCCHHHHHHHHHHHHHHcCCCCC
Confidence            2355677777643    2456777777778888889888  774 7999999999988888877765443333

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.52  E-value=1.1e-13  Score=146.24  Aligned_cols=170  Identities=18%  Similarity=0.243  Sum_probs=120.9

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC----CcEEEEeccccCC--h
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK----FDIYDMELASLRS--N  280 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~----~~v~~l~~~~~~~--~  280 (455)
                      .+++-.+..|++..++...+           +..+.++||+||+|||||.|++++++++.    +++..++|+.+..  -
T Consensus       408 ~d~i~~~s~kke~~n~~~sp-----------v~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~  476 (952)
T KOG0735|consen  408 HDFIQVPSYKKENANQELSP-----------VFRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSL  476 (952)
T ss_pred             Cceeecchhhhhhhhhhccc-----------ccccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhH
Confidence            45555666666665533222           23356899999999999999999999984    4566788887743  3


Q ss_pred             HHHHHHHH----hh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC
Q 047029          281 SDLRRLLV----ST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER  354 (455)
Q Consensus       281 ~~l~~ll~----~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~  354 (455)
                      ..+++.+.    ..  ..|+||++||+|+++..   ....++..+.....+..++|.+-......+..+.+|+|.+....
T Consensus       477 e~iQk~l~~vfse~~~~~PSiIvLDdld~l~~~---s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qt  553 (952)
T KOG0735|consen  477 EKIQKFLNNVFSEALWYAPSIIVLDDLDCLASA---SSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQT  553 (952)
T ss_pred             HHHHHHHHHHHHHHHhhCCcEEEEcchhhhhcc---CcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhh
Confidence            34444443    22  47999999999999861   11111122333445556665554433333445688999999999


Q ss_pred             CCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          355 LDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       355 Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      |+|.|..|++|+.++.++.|...+|.+|+++.+...
T Consensus       554 l~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~  589 (952)
T KOG0735|consen  554 LNPLLVSPLLFQIVIALPAPAVTRRKEILTTIFSKN  589 (952)
T ss_pred             cChhhcCccceEEEEecCCcchhHHHHHHHHHHHhh
Confidence            999999999999999999999999999999988654

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.52  E-value=4.8e-13  Score=135.05  Aligned_cols=159  Identities=14%  Similarity=0.213  Sum_probs=106.8

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC-----CcEEEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK-----FDIYDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~-----~~v~~l~~~  275 (455)
                      ..|.+|++++|.+++++.+.+.+.    .       +.  ..++|||||||||||++|+++|+++.     .++..+++.
T Consensus         9 y~P~~~~~~~g~~~~~~~L~~~~~----~-------~~--~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~   75 (337)
T PRK12402          9 YRPALLEDILGQDEVVERLSRAVD----S-------PN--LPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVA   75 (337)
T ss_pred             hCCCcHHHhcCCHHHHHHHHHHHh----C-------CC--CceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechh
Confidence            468899999999988877766553    1       11  23699999999999999999999984     245666665


Q ss_pred             ccCC--------------------------hHHHHHHHHhh-------CCceEEEEecccchhhhhhhcCCCCCCCCcch
Q 047029          276 SLRS--------------------------NSDLRRLLVST-------GNRSILVIEDIDCSIELENRQCGGGYDENNSQ  322 (455)
Q Consensus       276 ~~~~--------------------------~~~l~~ll~~~-------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~  322 (455)
                      .+..                          ...++.++...       ..+.+|+|||+|.+..                
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~----------------  139 (337)
T PRK12402         76 DFFDQGKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALRE----------------  139 (337)
T ss_pred             hhhhcchhhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCH----------------
Confidence            4210                          11222222111       2357999999997632                


Q ss_pred             hhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch
Q 047029          323 VTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF  395 (455)
Q Consensus       323 ~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~  395 (455)
                      .....|+..++...    ....+|++|+.+..+.++|.+  |+ ..+++..|+.++...+++..+...+..+.
T Consensus       140 ~~~~~L~~~le~~~----~~~~~Il~~~~~~~~~~~L~s--r~-~~v~~~~~~~~~~~~~l~~~~~~~~~~~~  205 (337)
T PRK12402        140 DAQQALRRIMEQYS----RTCRFIIATRQPSKLIPPIRS--RC-LPLFFRAPTDDELVDVLESIAEAEGVDYD  205 (337)
T ss_pred             HHHHHHHHHHHhcc----CCCeEEEEeCChhhCchhhcC--Cc-eEEEecCCCHHHHHHHHHHHHHHcCCCCC
Confidence            12334555555432    234466677777778888887  76 57999999999999999888766544443

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.52  E-value=2.7e-13  Score=140.97  Aligned_cols=178  Identities=16%  Similarity=0.211  Sum_probs=113.2

Q ss_pred             ccCCCCCCcccc-cCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEE
Q 047029          199 NLDHPSTFDTLA-MDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDM  272 (455)
Q Consensus       199 ~~~~p~tfd~l~-g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l  272 (455)
                      .+++..+||+.+ |....  .....+..+...+      |. ...+++||||||||||+|++|+|+++     +..++.+
T Consensus       102 ~l~~~~tfd~fi~g~~n~--~a~~~~~~~~~~~------~~-~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi  172 (405)
T TIGR00362       102 PLNPKYTFDNFVVGKSNR--LAHAAALAVAENP------GK-AYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYV  172 (405)
T ss_pred             CCCCCCcccccccCCcHH--HHHHHHHHHHhCc------Cc-cCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEE
Confidence            466677999954 43322  1223333333221      21 23579999999999999999999988     5678888


Q ss_pred             eccccCCh-------HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEE
Q 047029          273 ELASLRSN-------SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERII  345 (455)
Q Consensus       273 ~~~~~~~~-------~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~iv  345 (455)
                      ++..+...       ...........+..+|+|||||.+..              ...+...|+..++.+...  +..+|
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~--------------~~~~~~~l~~~~n~~~~~--~~~ii  236 (405)
T TIGR00362       173 SSEKFTNDFVNALRNNKMEEFKEKYRSVDLLLIDDIQFLAG--------------KERTQEEFFHTFNALHEN--GKQIV  236 (405)
T ss_pred             EHHHHHHHHHHHHHcCCHHHHHHHHHhCCEEEEehhhhhcC--------------CHHHHHHHHHHHHHHHHC--CCCEE
Confidence            76653210       11112222334568999999998742              012233455555555432  23444


Q ss_pred             EEEcCCCC---CCCccccCCCcee--EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhc
Q 047029          346 VFTTNYKE---RLDPALLRPGRMD--MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIK  403 (455)
Q Consensus       346 I~TTN~~~---~Ld~allRpGR~d--~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~  403 (455)
                      |.+++.|.   .+++.+.+  ||.  ..++++.|+.++|..+++..+...+..+.+++...+.
T Consensus       237 its~~~p~~l~~l~~~l~S--Rl~~g~~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia  297 (405)
T TIGR00362       237 LTSDRPPKELPGLEERLRS--RFEWGLVVDIEPPDLETRLAILQKKAEEEGLELPDEVLEFIA  297 (405)
T ss_pred             EecCCCHHHHhhhhhhhhh--hccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            44444554   36688888  886  5899999999999999999998777667666665554

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).

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.52  E-value=4.1e-13  Score=144.24  Aligned_cols=164  Identities=19%  Similarity=0.300  Sum_probs=120.0

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------------  267 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--------------  267 (455)
                      .|.+|++++|++.+++.+...+..            ...+..||||||||+|||++|+++|+.+++              
T Consensus        11 RP~~f~diiGqe~iv~~L~~~i~~------------~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~   78 (563)
T PRK06647         11 RPRDFNSLEGQDFVVETLKHSIES------------NKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSS   78 (563)
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchH
Confidence            589999999999999988777652            123567999999999999999999999864              


Q ss_pred             ----------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          268 ----------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       268 ----------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                +++.++...-.+-..++.+....      ....|++|||+|.+..                ...+.||..
T Consensus        79 C~~i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~----------------~a~naLLK~  142 (563)
T PRK06647         79 CKSIDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSN----------------SAFNALLKT  142 (563)
T ss_pred             HHHHHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCH----------------HHHHHHHHh
Confidence                      34444433222334566555322      3467999999998732                346678887


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHH
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEE  400 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~  400 (455)
                      ++..    +...++|++|+.+.+|.++++.  |+. .++|..++.++....++..+...+....++...
T Consensus       143 LEep----p~~~vfI~~tte~~kL~~tI~S--Rc~-~~~f~~l~~~el~~~L~~i~~~egi~id~eAl~  204 (563)
T PRK06647        143 IEEP----PPYIVFIFATTEVHKLPATIKS--RCQ-HFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALK  204 (563)
T ss_pred             hccC----CCCEEEEEecCChHHhHHHHHH--hce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            7752    3567888888888999999998  884 689999999999888888776555444444333

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.51  E-value=5e-13  Score=144.58  Aligned_cols=160  Identities=16%  Similarity=0.283  Sum_probs=116.0

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc-------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD-------------  268 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~-------------  268 (455)
                      .|.+|++++|++.+++.|.+.+.            ....+.+|||+||||||||++|+++|+.+.+.             
T Consensus        11 RP~~f~eivGQe~i~~~L~~~i~------------~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~   78 (620)
T PRK14954         11 RPSKFADITAQEHITHTIQNSLR------------MDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVT   78 (620)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHH------------cCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccC
Confidence            58899999999999888766553            12335689999999999999999999999652             


Q ss_pred             -------------------EEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchh
Q 047029          269 -------------------IYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQV  323 (455)
Q Consensus       269 -------------------v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~  323 (455)
                                         +..++.....+..+++.+....      ....|++|||+|.+..                .
T Consensus        79 ~~Cg~C~sC~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~----------------~  142 (620)
T PRK14954         79 EPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLST----------------A  142 (620)
T ss_pred             CCCccCHHHHHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCH----------------H
Confidence                               2223322222345666665444      3467999999998732                2


Q ss_pred             hHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          324 TLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       324 ~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      ..+.||..|+.-    ++..++|++|+.+.+|-+++.+  |+ ..++|..++.++....+...+...+..+.+
T Consensus       143 a~naLLK~LEeP----p~~tv~IL~t~~~~kLl~TI~S--Rc-~~vef~~l~~~ei~~~L~~i~~~egi~I~~  208 (620)
T PRK14954        143 AFNAFLKTLEEP----PPHAIFIFATTELHKIPATIAS--RC-QRFNFKRIPLDEIQSQLQMICRAEGIQIDA  208 (620)
T ss_pred             HHHHHHHHHhCC----CCCeEEEEEeCChhhhhHHHHh--hc-eEEecCCCCHHHHHHHHHHHHHHcCCCCCH
Confidence            356788887764    2446777777778899999988  77 589999999999887777777655443433

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.51  E-value=5.4e-13  Score=144.02  Aligned_cols=161  Identities=17%  Similarity=0.316  Sum_probs=120.1

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD------------  268 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~------------  268 (455)
                      ..|.+|++|+|++.+++.|.+.+..           | ..+..+||+||+|+|||++|+++|+.+++.            
T Consensus        18 yRP~~f~dliGq~~~v~~L~~~~~~-----------g-ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~   85 (598)
T PRK09111         18 YRPQTFDDLIGQEAMVRTLTNAFET-----------G-RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDL   85 (598)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCcccc
Confidence            4588999999999999888776641           2 235689999999999999999999998643            


Q ss_pred             -----------------EEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhH
Q 047029          269 -----------------IYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTL  325 (455)
Q Consensus       269 -----------------v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~l  325 (455)
                                       ++.++..+..+-.++++++...      ....|++|||+|.+..                ...
T Consensus        86 cg~c~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~----------------~a~  149 (598)
T PRK09111         86 CGVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLST----------------AAF  149 (598)
T ss_pred             CcccHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCH----------------HHH
Confidence                             2233333323445677776443      2467999999998732                346


Q ss_pred             hhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          326 SGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       326 s~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      +.||..|+..    ++..++|++|+.++++.+.++.  |+ ..++|..++.++....+...+..++....+
T Consensus       150 naLLKtLEeP----p~~~~fIl~tte~~kll~tI~S--Rc-q~~~f~~l~~~el~~~L~~i~~kegi~i~~  213 (598)
T PRK09111        150 NALLKTLEEP----PPHVKFIFATTEIRKVPVTVLS--RC-QRFDLRRIEADVLAAHLSRIAAKEGVEVED  213 (598)
T ss_pred             HHHHHHHHhC----CCCeEEEEEeCChhhhhHHHHh--he-eEEEecCCCHHHHHHHHHHHHHHcCCCCCH
Confidence            7788877753    3557788888888889899888  87 579999999999988888887766554443

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=99.51  E-value=5.4e-14  Score=155.25  Aligned_cols=154  Identities=26%  Similarity=0.314  Sum_probs=106.0

Q ss_pred             CcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEEEecc
Q 047029          206 FDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYDMELA  275 (455)
Q Consensus       206 fd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~l~~~  275 (455)
                      ++.++|.++..+++++.+..             ..+.++||+||||||||++|+++|...          +..++.++.+
T Consensus       185 ~~~liGR~~ei~~~i~iL~r-------------~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~  251 (758)
T PRK11034        185 IDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIG  251 (758)
T ss_pred             CCcCcCCCHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHH
Confidence            55678877777777665542             125689999999999999999999875          5666766655


Q ss_pred             ccC--------ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEE
Q 047029          276 SLR--------SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERII  345 (455)
Q Consensus       276 ~~~--------~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~iv  345 (455)
                      .+.        ....++.++...  ..++||||||||.++.....        ...+.....+   +.....+  +++.+
T Consensus       252 ~llaG~~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~--------~~g~~d~~nl---Lkp~L~~--g~i~v  318 (758)
T PRK11034        252 SLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAA--------SGGQVDAANL---IKPLLSS--GKIRV  318 (758)
T ss_pred             HHhcccchhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCC--------CCcHHHHHHH---HHHHHhC--CCeEE
Confidence            432        123455665443  35789999999998752110        0111112222   2222222  57889


Q ss_pred             EEEcCCCC-----CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          346 VFTTNYKE-----RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       346 I~TTN~~~-----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      |++||.++     ..|+||.|  ||+ .|+++.|+.+++..|++.+..
T Consensus       319 IgATt~~E~~~~~~~D~AL~r--RFq-~I~v~ePs~~~~~~IL~~~~~  363 (758)
T PRK11034        319 IGSTTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLKP  363 (758)
T ss_pred             EecCChHHHHHHhhccHHHHh--hCc-EEEeCCCCHHHHHHHHHHHHH
Confidence            99999765     57999999  996 799999999999999986654

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.50  E-value=2.6e-13  Score=150.86  Aligned_cols=158  Identities=23%  Similarity=0.232  Sum_probs=115.3

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHH-----
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSD-----  282 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~-----  282 (455)
                      +..|.+++|+.|++.+......       +......++|+||||||||++++++|+.++.+++.++++...+...     
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~~-------~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~~  395 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSRV-------NKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHR  395 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHhc-------ccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccch
Confidence            4788999999999877633221       2223446999999999999999999999999999998876543322     


Q ss_pred             ----------HHHHHHhhC-CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc----c-------cCC
Q 047029          283 ----------LRRLLVSTG-NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW----S-------SCG  340 (455)
Q Consensus       283 ----------l~~ll~~~~-~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~----~-------~~~  340 (455)
                                +.+.+.... ...||+|||||.+..            .......+.|++.+|.-.    .       -.-
T Consensus       396 ~~~~g~~~G~~~~~l~~~~~~~~villDEidk~~~------------~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dl  463 (784)
T PRK10787        396 RTYIGSMPGKLIQKMAKVGVKNPLFLLDEIDKMSS------------DMRGDPASALLEVLDPEQNVAFSDHYLEVDYDL  463 (784)
T ss_pred             hccCCCCCcHHHHHHHhcCCCCCEEEEEChhhccc------------ccCCCHHHHHHHHhccccEEEEecccccccccC
Confidence                      233333332 345899999998743            011123567777777310    0       011


Q ss_pred             CceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          341 DERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       341 ~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      .++++|+|+|.. .|+|||+.  ||. .|.+..++.++..+|+++|+.
T Consensus       464 s~v~~i~TaN~~-~i~~aLl~--R~~-ii~~~~~t~eek~~Ia~~~L~  507 (784)
T PRK10787        464 SDVMFVATSNSM-NIPAPLLD--RME-VIRLSGYTEDEKLNIAKRHLL  507 (784)
T ss_pred             CceEEEEcCCCC-CCCHHHhc--cee-eeecCCCCHHHHHHHHHHhhh
Confidence            568999999987 49999999  996 689999999999999999984

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.50  E-value=8.6e-13  Score=143.27  Aligned_cols=159  Identities=20%  Similarity=0.307  Sum_probs=117.2

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      ..|.+|++++|++.+++.|...+..           | .-..+||||||||||||++|+++|+.+++             
T Consensus        10 yRP~~f~~liGq~~i~~~L~~~l~~-----------~-rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~   77 (620)
T PRK14948         10 YRPQRFDELVGQEAIATTLKNALIS-----------N-RIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGK   77 (620)
T ss_pred             hCCCcHhhccChHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcc
Confidence            4578999999999998888776652           1 12458999999999999999999999865             


Q ss_pred             -------------cEEEEeccccCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhh
Q 047029          268 -------------DIYDMELASLRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGL  328 (455)
Q Consensus       268 -------------~v~~l~~~~~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~L  328 (455)
                                   +++.++......-..+++++....      ...|++|||+|.+-.                ...+.|
T Consensus        78 C~~C~~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~----------------~a~naL  141 (620)
T PRK14948         78 CELCRAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLST----------------AAFNAL  141 (620)
T ss_pred             cHHHHHHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCH----------------HHHHHH
Confidence                         344444433234456777765442      357999999998732                356778


Q ss_pred             hhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc
Q 047029          329 LNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM  394 (455)
Q Consensus       329 L~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l  394 (455)
                      |..|+.-    +...++|++|+.++.+-++|++  |+ ..++|..++.++....+......++...
T Consensus       142 LK~LEeP----p~~tvfIL~t~~~~~llpTIrS--Rc-~~~~f~~l~~~ei~~~L~~ia~kegi~i  200 (620)
T PRK14948        142 LKTLEEP----PPRVVFVLATTDPQRVLPTIIS--RC-QRFDFRRIPLEAMVQHLSEIAEKESIEI  200 (620)
T ss_pred             HHHHhcC----CcCeEEEEEeCChhhhhHHHHh--he-eEEEecCCCHHHHHHHHHHHHHHhCCCC
Confidence            8888853    3557888888888899999998  87 5789999988887776666665544333

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.50  E-value=1e-12  Score=125.76  Aligned_cols=169  Identities=15%  Similarity=0.223  Sum_probs=106.5

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      ++...|.+||++.+..+  +.+...+..+..        +....++++|+||||||||+|++++++++   +..++.+++
T Consensus         9 ~~~~~~~~~d~f~~~~~--~~~~~~l~~~~~--------~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~   78 (227)
T PRK08903          9 LGPPPPPTFDNFVAGEN--AELVARLRELAA--------GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDA   78 (227)
T ss_pred             CCCCChhhhcccccCCc--HHHHHHHHHHHh--------ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeh
Confidence            44566778999873321  223344443322        23345789999999999999999999986   667777777


Q ss_pred             cccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC-
Q 047029          275 ASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE-  353 (455)
Q Consensus       275 ~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~-  353 (455)
                      .....      .+.......+|+|||+|.+..             ..   ...|+..++.....  +..++|+|++.+. 
T Consensus        79 ~~~~~------~~~~~~~~~~liiDdi~~l~~-------------~~---~~~L~~~~~~~~~~--~~~~vl~~~~~~~~  134 (227)
T PRK08903         79 ASPLL------AFDFDPEAELYAVDDVERLDD-------------AQ---QIALFNLFNRVRAH--GQGALLVAGPAAPL  134 (227)
T ss_pred             HHhHH------HHhhcccCCEEEEeChhhcCc-------------hH---HHHHHHHHHHHHHc--CCcEEEEeCCCCHH
Confidence            65421      122334568999999997621             12   23344555443322  2345666665432 


Q ss_pred             --CCCccccCCCce--eEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          354 --RLDPALLRPGRM--DMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       354 --~Ld~allRpGR~--d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                        .+.+.|.+  ||  ...|+++.|+.++...++..+....+..+.+++.+.+
T Consensus       135 ~~~l~~~L~s--r~~~~~~i~l~pl~~~~~~~~l~~~~~~~~v~l~~~al~~L  185 (227)
T PRK08903        135 ALPLREDLRT--RLGWGLVYELKPLSDADKIAALKAAAAERGLQLADEVPDYL  185 (227)
T ss_pred             hCCCCHHHHH--HHhcCeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence              35566776  66  5799999999998888887766554444544444443

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.49  E-value=1.8e-13  Score=154.32  Aligned_cols=199  Identities=17%  Similarity=0.161  Sum_probs=127.3

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEE
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYD  271 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~  271 (455)
                      .|..++.++|.++..+++++.|.             ...+++.+|+||||||||++++++|..+          +.+++.
T Consensus       168 ~~~~~~~~igr~~ei~~~~~~l~-------------r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~  234 (852)
T TIGR03346       168 REGKLDPVIGRDEEIRRTIQVLS-------------RRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLA  234 (852)
T ss_pred             hCCCCCcCCCcHHHHHHHHHHHh-------------cCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEE
Confidence            35578889998887666665543             1236789999999999999999999986          678888


Q ss_pred             EeccccCC--------hHHHHHHHHhh---CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCC
Q 047029          272 MELASLRS--------NSDLRRLLVST---GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCG  340 (455)
Q Consensus       272 l~~~~~~~--------~~~l~~ll~~~---~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~  340 (455)
                      ++++.+..        ...++.++...   ..+.|||||||+.+......       .+ .....+-|...+    .  .
T Consensus       235 l~~~~l~a~~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~-------~~-~~d~~~~Lk~~l----~--~  300 (852)
T TIGR03346       235 LDMGALIAGAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKA-------EG-AMDAGNMLKPAL----A--R  300 (852)
T ss_pred             eeHHHHhhcchhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCC-------cc-hhHHHHHhchhh----h--c
Confidence            88776521        23566777554   35899999999998642110       01 111112222221    1  2


Q ss_pred             CceEEEEEcCCCC-----CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc--CCC---chHHHHHhhccccCchh
Q 047029          341 DERIIVFTTNYKE-----RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK--SHS---MFDEIEELIKEVEVTPA  410 (455)
Q Consensus       341 ~~~ivI~TTN~~~-----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~--~~~---l~~ei~~ll~~~~~tpa  410 (455)
                      +++.+|++|+..+     .+|+|+.|  ||. .|.++.|+.+++..+++.+...-  .|.   ..+.+...+.-.    .
T Consensus       301 g~i~~IgaTt~~e~r~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~~~d~~i~~~~~ls----~  373 (852)
T TIGR03346       301 GELHCIGATTLDEYRKYIEKDAALER--RFQ-PVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLS----H  373 (852)
T ss_pred             CceEEEEeCcHHHHHHHhhcCHHHHh--cCC-EEEeCCCCHHHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhc----c
Confidence            5688888888653     47999999  996 58999999999999888764432  122   233343333210    1


Q ss_pred             HHHhccCCHHHHHHHHHHHHHHhh
Q 047029          411 EEFMKSEDADVALNGLVDFLLRKK  434 (455)
Q Consensus       411 ~~l~~~~~~~~al~~l~~~l~~~~  434 (455)
                      .++-.+.-|++|++-+-++..+.+
T Consensus       374 ~yi~~r~lPdkAidlld~a~a~~~  397 (852)
T TIGR03346       374 RYITDRFLPDKAIDLIDEAAARIR  397 (852)
T ss_pred             ccccccCCchHHHHHHHHHHHHHH
Confidence            222334456666666665555443

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.

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

Probab=99.49  E-value=4.9e-13  Score=147.08  Aligned_cols=151  Identities=23%  Similarity=0.315  Sum_probs=104.4

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChH
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNS  281 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~  281 (455)
                      .|.+|++++|++++... ...+...+..       +  ...++|||||||||||++|+++|+.++.+++.+++... +..
T Consensus        23 RP~tldd~vGQe~ii~~-~~~L~~~i~~-------~--~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~-~i~   91 (725)
T PRK13341         23 RPRTLEEFVGQDHILGE-GRLLRRAIKA-------D--RVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLA-GVK   91 (725)
T ss_pred             CCCcHHHhcCcHHHhhh-hHHHHHHHhc-------C--CCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhh-hhH
Confidence            48999999999887643 1122222222       1  12479999999999999999999999988888876532 222


Q ss_pred             HHHHHHHh-------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEc--CCC
Q 047029          282 DLRRLLVS-------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT--NYK  352 (455)
Q Consensus       282 ~l~~ll~~-------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TT--N~~  352 (455)
                      .++..+..       ..++.||||||||.+..                .....|+..++.      +.+++|++|  |..
T Consensus        92 dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~----------------~qQdaLL~~lE~------g~IiLI~aTTenp~  149 (725)
T PRK13341         92 DLRAEVDRAKERLERHGKRTILFIDEVHRFNK----------------AQQDALLPWVEN------GTITLIGATTENPY  149 (725)
T ss_pred             HHHHHHHHHHHHhhhcCCceEEEEeChhhCCH----------------HHHHHHHHHhcC------ceEEEEEecCCChH
Confidence            33333322       23567999999998732                123345555543      235666544  444


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      ..+++++++  |+ ..+.++.++.++...++++++.
T Consensus       150 ~~l~~aL~S--R~-~v~~l~pLs~edi~~IL~~~l~  182 (725)
T PRK13341        150 FEVNKALVS--RS-RLFRLKSLSDEDLHQLLKRALQ  182 (725)
T ss_pred             hhhhhHhhc--cc-cceecCCCCHHHHHHHHHHHHH
Confidence            678999998  65 4699999999999999999886

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.48  E-value=1.1e-12  Score=142.17  Aligned_cols=162  Identities=18%  Similarity=0.267  Sum_probs=116.6

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      ..|.+|++|+|++.+++.|...+..           | ..+..||||||||+|||++++++|+.+++             
T Consensus        10 yRP~~~~eiiGq~~~~~~L~~~i~~-----------~-~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c   77 (585)
T PRK14950         10 WRSQTFAELVGQEHVVQTLRNAIAE-----------G-RVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTC   77 (585)
T ss_pred             hCCCCHHHhcCCHHHHHHHHHHHHh-----------C-CCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccC
Confidence            3589999999999999888776642           1 22457999999999999999999998853             


Q ss_pred             ------------cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhh
Q 047029          268 ------------DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLL  329 (455)
Q Consensus       268 ------------~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL  329 (455)
                                  +++.++.+...+...++++....      ....|+||||+|.+..                ..++.||
T Consensus        78 ~~c~~i~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~----------------~a~naLL  141 (585)
T PRK14950         78 EMCRAIAEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLST----------------AAFNALL  141 (585)
T ss_pred             HHHHHHhcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCH----------------HHHHHHH
Confidence                        23444443333445566554332      2467999999997732                3466788


Q ss_pred             hhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH
Q 047029          330 NFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE  397 (455)
Q Consensus       330 ~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e  397 (455)
                      ..++.-.    ...++|++|+..+.+.+.+.+  |+ ..++|..++..+....+...+...+....++
T Consensus       142 k~LEepp----~~tv~Il~t~~~~kll~tI~S--R~-~~i~f~~l~~~el~~~L~~~a~~egl~i~~e  202 (585)
T PRK14950        142 KTLEEPP----PHAIFILATTEVHKVPATILS--RC-QRFDFHRHSVADMAAHLRKIAAAEGINLEPG  202 (585)
T ss_pred             HHHhcCC----CCeEEEEEeCChhhhhHHHHh--cc-ceeeCCCCCHHHHHHHHHHHHHHcCCCCCHH
Confidence            8877642    457777888888888888887  77 4689999999998888887776655444433

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.47  E-value=7.4e-13  Score=141.64  Aligned_cols=179  Identities=16%  Similarity=0.187  Sum_probs=116.2

Q ss_pred             ccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEe
Q 047029          199 NLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDME  273 (455)
Q Consensus       199 ~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~  273 (455)
                      .+....+||+++..+.-. .....+......      .+. +.+.++|||++|||||+|++|+|+++     +..++++.
T Consensus       280 ~L~~~~TFDnFvvG~sN~-~A~aaa~avae~------~~~-~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit  351 (617)
T PRK14086        280 RLNPKYTFDTFVIGASNR-FAHAAAVAVAEA------PAK-AYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS  351 (617)
T ss_pred             CCCCCCCHhhhcCCCccH-HHHHHHHHHHhC------ccc-cCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee
Confidence            455667899987544322 112222222221      122 23459999999999999999999987     56788887


Q ss_pred             ccccCC-------hHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEE
Q 047029          274 LASLRS-------NSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIV  346 (455)
Q Consensus       274 ~~~~~~-------~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI  346 (455)
                      +..+..       ...+..+.....+..+|+||||+.+..           .   ..+...|++.++.+...   +.-||
T Consensus       352 aeef~~el~~al~~~~~~~f~~~y~~~DLLlIDDIq~l~g-----------k---e~tqeeLF~l~N~l~e~---gk~II  414 (617)
T PRK14086        352 SEEFTNEFINSIRDGKGDSFRRRYREMDILLVDDIQFLED-----------K---ESTQEEFFHTFNTLHNA---NKQIV  414 (617)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHhhcCCEEEEehhccccC-----------C---HHHHHHHHHHHHHHHhc---CCCEE
Confidence            765421       111122223345678999999998743           1   12234455555555432   23355


Q ss_pred             EEcCCC----CCCCccccCCCce--eEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhcc
Q 047029          347 FTTNYK----ERLDPALLRPGRM--DMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKE  404 (455)
Q Consensus       347 ~TTN~~----~~Ld~allRpGR~--d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~  404 (455)
                      +|+|.+    ..+++.|.+  ||  ...+++..|+.+.|..|++......+..+.+++.+.|..
T Consensus       415 ITSd~~P~eL~~l~~rL~S--Rf~~GLvv~I~~PD~EtR~aIL~kka~~r~l~l~~eVi~yLa~  476 (617)
T PRK14086        415 LSSDRPPKQLVTLEDRLRN--RFEWGLITDVQPPELETRIAILRKKAVQEQLNAPPEVLEFIAS  476 (617)
T ss_pred             EecCCChHhhhhccHHHHh--hhhcCceEEcCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            577743    457889999  77  677899999999999999999888777777777777644

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.47  E-value=4.9e-13  Score=143.31  Aligned_cols=171  Identities=24%  Similarity=0.314  Sum_probs=115.8

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEE
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIY  270 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~  270 (455)
                      ..|.+|++++|.+...+.+...+.    .         +.+..+|||||||||||++|+++++++          +.+++
T Consensus        59 ~rp~~f~~iiGqs~~i~~l~~al~----~---------~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi  125 (531)
T TIGR02902        59 TRPKSFDEIIGQEEGIKALKAALC----G---------PNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFV  125 (531)
T ss_pred             hCcCCHHHeeCcHHHHHHHHHHHh----C---------CCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEE
Confidence            467899999999988877765421    1         125689999999999999999998753          35788


Q ss_pred             EEeccccC-ChHHHH-HHH--------------------------HhhCCceEEEEecccchhhhhhhcCCCCCCCCcch
Q 047029          271 DMELASLR-SNSDLR-RLL--------------------------VSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQ  322 (455)
Q Consensus       271 ~l~~~~~~-~~~~l~-~ll--------------------------~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~  322 (455)
                      .++++... ++..+. .++                          .....+.+||||||+.+..                
T Consensus       126 ~id~~~~~~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~----------------  189 (531)
T TIGR02902       126 EIDATTARFDERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHP----------------  189 (531)
T ss_pred             EEccccccCCccccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCCH----------------
Confidence            88876421 111110 000                          1122457999999998743                


Q ss_pred             hhHhhhhhhhhcc--------ccc-----------------CCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHH
Q 047029          323 VTLSGLLNFVDGL--------WSS-----------------CGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPG  377 (455)
Q Consensus       323 ~~ls~LL~~ldg~--------~~~-----------------~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~  377 (455)
                      ...+.||..|+..        .+.                 ..+-++|++|||.++.|+|++++  |+ ..|+|+.++.+
T Consensus       190 ~~q~~LL~~Le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrs--R~-~~I~f~pL~~e  266 (531)
T TIGR02902       190 VQMNKLLKVLEDRKVFLDSAYYNSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRS--RC-VEIFFRPLLDE  266 (531)
T ss_pred             HHHHHHHHHHHhCeeeeccccccccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhh--hh-heeeCCCCCHH
Confidence            2344455544321        000                 01225677788899999999999  88 57899999999


Q ss_pred             HHHHHHHHhhcccCCCchHHHHHhhc
Q 047029          378 GFKILAFNYLKIKSHSMFDEIEELIK  403 (455)
Q Consensus       378 ~~~~L~~~~l~~~~~~l~~ei~~ll~  403 (455)
                      ++..++++.+...+..+.++.-+++.
T Consensus       267 ei~~Il~~~a~k~~i~is~~al~~I~  292 (531)
T TIGR02902       267 EIKEIAKNAAEKIGINLEKHALELIV  292 (531)
T ss_pred             HHHHHHHHHHHHcCCCcCHHHHHHHH
Confidence            99999999987766555555544443

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.

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.47  E-value=2.7e-12  Score=131.26  Aligned_cols=160  Identities=17%  Similarity=0.184  Sum_probs=108.1

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC---------CcEEEEec
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---------FDIYDMEL  274 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~---------~~v~~l~~  274 (455)
                      ..-+.+.+-++..++|...+...+.+         ..+.++++|||||||||++++++++.+.         +.++.+++
T Consensus        12 ~~p~~l~gRe~e~~~l~~~l~~~~~~---------~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~   82 (365)
T TIGR02928        12 YVPDRIVHRDEQIEELAKALRPILRG---------SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNC   82 (365)
T ss_pred             CCCCCCCCcHHHHHHHHHHHHHHHcC---------CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEEC
Confidence            34467889888888888877755442         1245899999999999999999998763         56777887


Q ss_pred             cccCChHH--------------------------HHHHHH---hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhH
Q 047029          275 ASLRSNSD--------------------------LRRLLV---STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTL  325 (455)
Q Consensus       275 ~~~~~~~~--------------------------l~~ll~---~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~l  325 (455)
                      ....+...                          +..++.   ...++.||+|||+|.+..             ..+..+
T Consensus        83 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~-------------~~~~~L  149 (365)
T TIGR02928        83 QILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVG-------------DDDDLL  149 (365)
T ss_pred             CCCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhcc-------------CCcHHH
Confidence            65432110                          111221   223467999999998852             111233


Q ss_pred             hhhhhhhhcccccCCCceEEEEEcCCCC---CCCccccCCCcee-EEEEeCCCCHHHHHHHHHHhhc
Q 047029          326 SGLLNFVDGLWSSCGDERIIVFTTNYKE---RLDPALLRPGRMD-MHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       326 s~LL~~ldg~~~~~~~~~ivI~TTN~~~---~Ld~allRpGR~d-~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      ..|+...+.. ...+.++.+|+++|.++   .+++.+.+  ||. ..|+|++++.++...+++..+.
T Consensus       150 ~~l~~~~~~~-~~~~~~v~lI~i~n~~~~~~~l~~~~~s--~~~~~~i~f~p~~~~e~~~il~~r~~  213 (365)
T TIGR02928       150 YQLSRARSNG-DLDNAKVGVIGISNDLKFRENLDPRVKS--SLCEEEIIFPPYDAEELRDILENRAE  213 (365)
T ss_pred             HhHhcccccc-CCCCCeEEEEEEECCcchHhhcCHHHhc--cCCcceeeeCCCCHHHHHHHHHHHHH
Confidence            4444331111 11124578888998775   58888877  664 6799999999999999998875

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.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.47  E-value=6.3e-13  Score=139.40  Aligned_cols=178  Identities=18%  Similarity=0.288  Sum_probs=112.5

Q ss_pred             ccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEe
Q 047029          199 NLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDME  273 (455)
Q Consensus       199 ~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~  273 (455)
                      ++.+..|||+++..+.-.. ....+..+...+      |  +.++++||||||||||+|++|+|+++     +..+++++
T Consensus        97 ~l~~~~tFdnFv~g~~n~~-a~~~~~~~~~~~------~--~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~  167 (440)
T PRK14088         97 PLNPDYTFENFVVGPGNSF-AYHAALEVAKNP------G--RYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT  167 (440)
T ss_pred             CCCCCCcccccccCCchHH-HHHHHHHHHhCc------C--CCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence            4667789999884333222 222333333222      1  23469999999999999999999987     45677777


Q ss_pred             ccccCC-------hHHHHHHHHhh-CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEE
Q 047029          274 LASLRS-------NSDLRRLLVST-GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERII  345 (455)
Q Consensus       274 ~~~~~~-------~~~l~~ll~~~-~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~iv  345 (455)
                      +..+..       ...+....... .++.+|+|||++.+.+           .   ..+...++..++.+...  +. .+
T Consensus       168 ~~~f~~~~~~~~~~~~~~~f~~~~~~~~dvLlIDDi~~l~~-----------~---~~~q~elf~~~n~l~~~--~k-~i  230 (440)
T PRK14088        168 SEKFLNDLVDSMKEGKLNEFREKYRKKVDVLLIDDVQFLIG-----------K---TGVQTELFHTFNELHDS--GK-QI  230 (440)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhcCCEEEEechhhhcC-----------c---HHHHHHHHHHHHHHHHc--CC-eE
Confidence            655311       01112222222 2578999999998743           0   11223455555555443  22 45


Q ss_pred             EEEc-CCCCC---CCccccCCCce--eEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhcc
Q 047029          346 VFTT-NYKER---LDPALLRPGRM--DMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKE  404 (455)
Q Consensus       346 I~TT-N~~~~---Ld~allRpGR~--d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~  404 (455)
                      |+|+ ++|..   +++.+.+  ||  ...+.+..|+.+.|..+++..+...+..+.+++...+.+
T Consensus       231 Iitsd~~p~~l~~l~~rL~S--R~~~gl~v~i~~pd~e~r~~IL~~~~~~~~~~l~~ev~~~Ia~  293 (440)
T PRK14088        231 VICSDREPQKLSEFQDRLVS--RFQMGLVAKLEPPDEETRKKIARKMLEIEHGELPEEVLNFVAE  293 (440)
T ss_pred             EEECCCCHHHHHHHHHHHhh--HHhcCceEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHh
Confidence            5555 45544   5677887  66  468899999999999999999887666777777666654

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.46  E-value=1.2e-12  Score=135.62  Aligned_cols=176  Identities=23%  Similarity=0.252  Sum_probs=112.1

Q ss_pred             Cc-ccccCHHHHHHHHHHHHHHHHhHHHHhh--hcC-CCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC--
Q 047029          206 FD-TLAMDPVLKQALIDDLDRFVKRREFYSR--VGK-AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS--  279 (455)
Q Consensus       206 fd-~l~g~~~~k~~l~~~l~~~l~~~~~~~~--~g~-~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~--  279 (455)
                      ++ .++|++++|+.+...+...+++-.....  -+. .++.++||+||||||||++|+++|+.++.+++.++++.+..  
T Consensus        69 L~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~~g  148 (412)
T PRK05342         69 LDQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAG  148 (412)
T ss_pred             HhhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhcccCC
Confidence            44 4799999999887766544333211000  011 23578999999999999999999999999999999876532  


Q ss_pred             ------hHHHHHHHHh------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccC---C----
Q 047029          280 ------NSDLRRLLVS------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSC---G----  340 (455)
Q Consensus       280 ------~~~l~~ll~~------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~---~----  340 (455)
                            ...+..++..      ...++||||||||.+...  ....+...+.....+.+.||..|||.....   +    
T Consensus       149 yvG~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~--~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~~gg~~~  226 (412)
T PRK05342        149 YVGEDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARK--SENPSITRDVSGEGVQQALLKILEGTVASVPPQGGRKH  226 (412)
T ss_pred             cccchHHHHHHHHHHhccccHHHcCCcEEEEechhhhccc--cCCCCcCCCcccHHHHHHHHHHHhcCeEEeCCCCCcCc
Confidence                  1223333322      236799999999998541  111111111122346788999998753111   1    


Q ss_pred             --CceEEEEEcCCCCC----------------------------------------------------CCccccCCCcee
Q 047029          341 --DERIIVFTTNYKER----------------------------------------------------LDPALLRPGRMD  366 (455)
Q Consensus       341 --~~~ivI~TTN~~~~----------------------------------------------------Ld~allRpGR~d  366 (455)
                        .+.++|.|+|-...                                                    +.|+|+  ||+|
T Consensus       227 ~~~~~~~i~t~nilfi~~Gaf~g~~~~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~dL~~~gf~PEfl--gRld  304 (412)
T PRK05342        227 PQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQVEPEDLIKFGLIPEFI--GRLP  304 (412)
T ss_pred             CCCCeEEeccCCceeeecccccCcHHHHHHHHhhcccCCccccccccccchhHHHHHhcCHHHHHHHhhhHHHh--CCCC
Confidence              23467777775110                                                    122333  5999


Q ss_pred             EEEEeCCCCHHHHHHHHHH
Q 047029          367 MHIHMSYLTPGGFKILAFN  385 (455)
Q Consensus       367 ~~I~~~~p~~~~~~~L~~~  385 (455)
                      ..+.|...+.++...|+..
T Consensus       305 ~iv~f~~L~~~~L~~Il~~  323 (412)
T PRK05342        305 VVATLEELDEEALVRILTE  323 (412)
T ss_pred             eeeecCCCCHHHHHHHHHH
Confidence            9999999999998888863

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.45  E-value=2.7e-12  Score=139.35  Aligned_cols=161  Identities=19%  Similarity=0.318  Sum_probs=121.6

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC--------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK--------------  266 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~--------------  266 (455)
                      ..|.+|++|+|++.+++.|.+.+..            ...+..||||||+|+|||++|+++|+.+.              
T Consensus        11 yRP~~f~~viGq~~~~~~L~~~i~~------------~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C   78 (614)
T PRK14971         11 YRPSTFESVVGQEALTTTLKNAIAT------------NKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNEC   78 (614)
T ss_pred             HCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcc
Confidence            4589999999999999988877651            22366899999999999999999999885              


Q ss_pred             -----------CcEEEEeccccCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhh
Q 047029          267 -----------FDIYDMELASLRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLL  329 (455)
Q Consensus       267 -----------~~v~~l~~~~~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL  329 (455)
                                 .+++.++..+..+...++.++....      ...|++|||+|.+..                ...+.|+
T Consensus        79 ~sC~~~~~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~----------------~a~naLL  142 (614)
T PRK14971         79 ESCVAFNEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQ----------------AAFNAFL  142 (614)
T ss_pred             hHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCH----------------HHHHHHH
Confidence                       3455565554344566777764432      356999999998732                3466788


Q ss_pred             hhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          330 NFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       330 ~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      ..|+..    ++..++|++|+.+.+|-++|++  |+ ..++|..++.++....+...+...+....+
T Consensus       143 K~LEep----p~~tifIL~tt~~~kIl~tI~S--Rc-~iv~f~~ls~~ei~~~L~~ia~~egi~i~~  202 (614)
T PRK14971        143 KTLEEP----PSYAIFILATTEKHKILPTILS--RC-QIFDFNRIQVADIVNHLQYVASKEGITAEP  202 (614)
T ss_pred             HHHhCC----CCCeEEEEEeCCchhchHHHHh--hh-heeecCCCCHHHHHHHHHHHHHHcCCCCCH
Confidence            888764    2457788888888899999998  87 469999999999888888777665544443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.45  E-value=3.9e-12  Score=127.34  Aligned_cols=160  Identities=16%  Similarity=0.192  Sum_probs=109.5

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC-----CcEEEEec
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK-----FDIYDMEL  274 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~-----~~v~~l~~  274 (455)
                      -..|.+|++++|.+++++.+...+.    .       +.  ..+++||||||||||++++++++.+.     ..++.++.
T Consensus        10 kyrP~~~~~~~g~~~~~~~l~~~i~----~-------~~--~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~   76 (319)
T PRK00440         10 KYRPRTLDEIVGQEEIVERLKSYVK----E-------KN--MPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNA   76 (319)
T ss_pred             hhCCCcHHHhcCcHHHHHHHHHHHh----C-------CC--CCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEecc
Confidence            3568899999999888877766553    1       11  22589999999999999999999973     23444444


Q ss_pred             cccCChHHHHHHHHh----h----CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEE
Q 047029          275 ASLRSNSDLRRLLVS----T----GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIV  346 (455)
Q Consensus       275 ~~~~~~~~l~~ll~~----~----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI  346 (455)
                      +.......++..+..    .    ..+.+|+|||+|.+..                .....|+..++...    ....+|
T Consensus        77 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l~~----------------~~~~~L~~~le~~~----~~~~lI  136 (319)
T PRK00440         77 SDERGIDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLTS----------------DAQQALRRTMEMYS----QNTRFI  136 (319)
T ss_pred             ccccchHHHHHHHHHHHhcCCCCCCCceEEEEeCcccCCH----------------HHHHHHHHHHhcCC----CCCeEE
Confidence            433222222222211    1    2356999999998732                12345666665432    335677


Q ss_pred             EEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch
Q 047029          347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF  395 (455)
Q Consensus       347 ~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~  395 (455)
                      +++|.+..+.+++.+  |+. .++++.++.++...+++.++...+..+.
T Consensus       137 l~~~~~~~l~~~l~s--r~~-~~~~~~l~~~ei~~~l~~~~~~~~~~i~  182 (319)
T PRK00440        137 LSCNYSSKIIDPIQS--RCA-VFRFSPLKKEAVAERLRYIAENEGIEIT  182 (319)
T ss_pred             EEeCCccccchhHHH--Hhh-eeeeCCCCHHHHHHHHHHHHHHcCCCCC
Confidence            788888888888888  775 5899999999999999988876654443

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.45  E-value=3.9e-13  Score=151.14  Aligned_cols=152  Identities=21%  Similarity=0.293  Sum_probs=108.2

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEEEec
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYDMEL  274 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~l~~  274 (455)
                      .++.++|.++..+++++.|.             ...+++++|+||||||||++|+++|..+          +..++.+++
T Consensus       177 ~~~~~igr~~ei~~~~~~L~-------------r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~  243 (821)
T CHL00095        177 NLDPVIGREKEIERVIQILG-------------RRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDI  243 (821)
T ss_pred             CCCCCCCcHHHHHHHHHHHc-------------ccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeH
Confidence            46778888888887777654             2236799999999999999999999987          478999988


Q ss_pred             cccCC--------hHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhh-hhhhcccccCCCce
Q 047029          275 ASLRS--------NSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLL-NFVDGLWSSCGDER  343 (455)
Q Consensus       275 ~~~~~--------~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL-~~ldg~~~~~~~~~  343 (455)
                      +.+..        +..++.++...  ..+.|||||||+.++.....       .+  ....+.+| ..+.      .+++
T Consensus       244 ~~l~ag~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~-------~g--~~~~a~lLkp~l~------rg~l  308 (821)
T CHL00095        244 GLLLAGTKYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAA-------EG--AIDAANILKPALA------RGEL  308 (821)
T ss_pred             HHHhccCCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCC-------CC--cccHHHHhHHHHh------CCCc
Confidence            76421        24677777654  35789999999998752110       01  11122232 2222      1567


Q ss_pred             EEEEEcCCCC-----CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          344 IIVFTTNYKE-----RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       344 ivI~TTN~~~-----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      .+|++|+..+     ..|+++.|  ||. .|.++.|+.++...|++...
T Consensus       309 ~~IgaTt~~ey~~~ie~D~aL~r--Rf~-~I~v~ep~~~e~~aILr~l~  354 (821)
T CHL00095        309 QCIGATTLDEYRKHIEKDPALER--RFQ-PVYVGEPSVEETIEILFGLR  354 (821)
T ss_pred             EEEEeCCHHHHHHHHhcCHHHHh--cce-EEecCCCCHHHHHHHHHHHH
Confidence            8888888653     47999999  996 58999999999888877543

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.44  E-value=2.5e-12  Score=134.87  Aligned_cols=181  Identities=20%  Similarity=0.268  Sum_probs=112.1

Q ss_pred             ccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          199 NLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       199 ~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      .+++..|||+.+..+.-+. ....+..+...+   ...+....++++||||||+|||+|++|+|+++   +..+++++..
T Consensus       103 ~l~~~~tFdnFv~g~~N~~-a~~~a~~~a~~~---~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~  178 (445)
T PRK12422        103 ELDPLMTFANFLVTPENDL-PHRILQEFTKVS---EQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSE  178 (445)
T ss_pred             CCCccccccceeeCCcHHH-HHHHHHHHHhcc---ccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHH
Confidence            4566779999874332221 112222222111   00011123579999999999999999999987   6778877765


Q ss_pred             ccCC-------hHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEE
Q 047029          276 SLRS-------NSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFT  348 (455)
Q Consensus       276 ~~~~-------~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~T  348 (455)
                      .+..       ............+..+|+||||+.+.+           ..   .+...++..++.+...   +..+|+|
T Consensus       179 ~f~~~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l~~-----------k~---~~qeelf~l~N~l~~~---~k~IIlt  241 (445)
T PRK12422        179 LFTEHLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFSG-----------KG---ATQEEFFHTFNSLHTE---GKLIVIS  241 (445)
T ss_pred             HHHHHHHHHHhcchHHHHHHHcccCCEEEEcchhhhcC-----------Ch---hhHHHHHHHHHHHHHC---CCcEEEe
Confidence            4311       111112112235678999999998632           11   1223344444433332   2356666


Q ss_pred             cCC-C---CCCCccccCCCcee--EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          349 TNY-K---ERLDPALLRPGRMD--MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       349 TN~-~---~~Ld~allRpGR~d--~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                      +|. |   ..++++|.+  ||.  ..+.+..|+.+.+..+++..+...+..+.+++...+
T Consensus       242 s~~~p~~l~~l~~rL~S--R~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~~~l~~evl~~l  299 (445)
T PRK12422        242 STCAPQDLKAMEERLIS--RFEWGIAIPLHPLTKEGLRSFLERKAEALSIRIEETALDFL  299 (445)
T ss_pred             cCCCHHHHhhhHHHHHh--hhcCCeEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            654 4   457889999  885  899999999999999999988877666767666644

>PRK05642 DNA replication initiation factor; Validated

Probab=99.44  E-value=3.5e-12  Score=122.98  Aligned_cols=174  Identities=18%  Similarity=0.228  Sum_probs=106.8

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCC-CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAW-KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~-~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      +..++..+||+.+...  ....++.+..+....       ..| .++++||||+|||||+|++|+|+++   +..+++++
T Consensus        10 ~~~~~~~tfdnF~~~~--~~~a~~~~~~~~~~~-------~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~   80 (234)
T PRK05642         10 VRLRDDATFANYYPGA--NAAALGYVERLCEAD-------AGWTESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLP   80 (234)
T ss_pred             CCCCCcccccccCcCC--hHHHHHHHHHHhhcc-------ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEee
Confidence            4456667999987432  233444444332211       122 3689999999999999999999875   56777887


Q ss_pred             ccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          274 LASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       274 ~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                      ..++...  ...++....+..+|+|||++.+..           ..   .....|++.++....+  +..+++.++..|.
T Consensus        81 ~~~~~~~--~~~~~~~~~~~d~LiiDDi~~~~~-----------~~---~~~~~Lf~l~n~~~~~--g~~ilits~~~p~  142 (234)
T PRK05642         81 LAELLDR--GPELLDNLEQYELVCLDDLDVIAG-----------KA---DWEEALFHLFNRLRDS--GRRLLLAASKSPR  142 (234)
T ss_pred             HHHHHhh--hHHHHHhhhhCCEEEEechhhhcC-----------Ch---HHHHHHHHHHHHHHhc--CCEEEEeCCCCHH
Confidence            7665321  123333344557999999997632           11   1223455555544332  2344444444443


Q ss_pred             ---CCCccccCCCce--eEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHH
Q 047029          354 ---RLDPALLRPGRM--DMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEE  400 (455)
Q Consensus       354 ---~Ld~allRpGR~--d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~  400 (455)
                         .+.|.|.+  |+  ...+.+..|+.+++..+++......+..+.+++..
T Consensus       143 ~l~~~~~~L~S--Rl~~gl~~~l~~~~~e~~~~il~~ka~~~~~~l~~ev~~  192 (234)
T PRK05642        143 ELPIKLPDLKS--RLTLALVFQMRGLSDEDKLRALQLRASRRGLHLTDEVGH  192 (234)
T ss_pred             HcCccCccHHH--HHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence               34688988  77  47888999999999999986544333334444433

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

Probab=99.44  E-value=1.2e-12  Score=129.51  Aligned_cols=150  Identities=21%  Similarity=0.330  Sum_probs=100.2

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc---EEEEeccccC
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD---IYDMELASLR  278 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~---v~~l~~~~~~  278 (455)
                      .|.++++.+|++++.-+ ...|...+..       +.  -..++||||||||||+||+.+|+-..-+   ++.+....- 
T Consensus       133 RPktL~dyvGQ~hlv~q-~gllrs~ieq-------~~--ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a-  201 (554)
T KOG2028|consen  133 RPKTLDDYVGQSHLVGQ-DGLLRSLIEQ-------NR--IPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNA-  201 (554)
T ss_pred             CcchHHHhcchhhhcCc-chHHHHHHHc-------CC--CCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEecccc-
Confidence            57889999998776544 2222222222       11  2379999999999999999999988655   444444432 


Q ss_pred             ChHHHHHHHHhh-------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEc--
Q 047029          279 SNSDLRRLLVST-------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT--  349 (455)
Q Consensus       279 ~~~~l~~ll~~~-------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TT--  349 (455)
                      .-.+++.+|.+.       +++.|||||||+.+-.                .....||-.++.      +.+++|++|  
T Consensus       202 ~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNk----------------sQQD~fLP~VE~------G~I~lIGATTE  259 (554)
T KOG2028|consen  202 KTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNK----------------SQQDTFLPHVEN------GDITLIGATTE  259 (554)
T ss_pred             chHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhh----------------hhhhcccceecc------CceEEEecccC
Confidence            346788888654       4689999999998621                112223433321      456677644  


Q ss_pred             CCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          350 NYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       350 N~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      |+.-.|..||+.  |+ .++-+...+.+....++.+-.
T Consensus       260 NPSFqln~aLlS--RC-~VfvLekL~~n~v~~iL~rai  294 (554)
T KOG2028|consen  260 NPSFQLNAALLS--RC-RVFVLEKLPVNAVVTILMRAI  294 (554)
T ss_pred             CCccchhHHHHh--cc-ceeEeccCCHHHHHHHHHHHH
Confidence            566789999999  77 456677788888888877643

>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=99.41  E-value=2.1e-12  Score=123.30  Aligned_cols=178  Identities=18%  Similarity=0.268  Sum_probs=107.9

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~  275 (455)
                      ++..|||+++-.+.-+ .....+..+...+      |. .-..++||||+|+|||+|++|+++++     +..+++++..
T Consensus         2 n~~~tFdnfv~g~~N~-~a~~~~~~ia~~~------~~-~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~   73 (219)
T PF00308_consen    2 NPKYTFDNFVVGESNE-LAYAAAKAIAENP------GE-RYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAE   73 (219)
T ss_dssp             -TT-SCCCS--TTTTH-HHHHHHHHHHHST------TT-SSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHH
T ss_pred             CCCCccccCCcCCcHH-HHHHHHHHHHhcC------CC-CCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHH
Confidence            4556899986433221 2223333333332      11 12358999999999999999999986     5678888765


Q ss_pred             ccCC-------hHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEE
Q 047029          276 SLRS-------NSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFT  348 (455)
Q Consensus       276 ~~~~-------~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~T  348 (455)
                      .+..       ...+.++......-.+|+|||++.+..              ...+...|...++.+...  +..+|+.+
T Consensus        74 ~f~~~~~~~~~~~~~~~~~~~~~~~DlL~iDDi~~l~~--------------~~~~q~~lf~l~n~~~~~--~k~li~ts  137 (219)
T PF00308_consen   74 EFIREFADALRDGEIEEFKDRLRSADLLIIDDIQFLAG--------------KQRTQEELFHLFNRLIES--GKQLILTS  137 (219)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHCTSSEEEEETGGGGTT--------------HHHHHHHHHHHHHHHHHT--TSEEEEEE
T ss_pred             HHHHHHHHHHHcccchhhhhhhhcCCEEEEecchhhcC--------------chHHHHHHHHHHHHHHhh--CCeEEEEe
Confidence            5421       123344445566789999999998743              123445566666655543  34555555


Q ss_pred             cCCCCC---CCccccCCCcee--EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhcc
Q 047029          349 TNYKER---LDPALLRPGRMD--MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKE  404 (455)
Q Consensus       349 TN~~~~---Ld~allRpGR~d--~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~  404 (455)
                      ...|..   +++.|..  ||.  ..+++..|+.+.+..+++......+..+.+++.+.+..
T Consensus       138 ~~~P~~l~~~~~~L~S--Rl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~l~~~v~~~l~~  196 (219)
T PF00308_consen  138 DRPPSELSGLLPDLRS--RLSWGLVVELQPPDDEDRRRILQKKAKERGIELPEEVIEYLAR  196 (219)
T ss_dssp             SS-TTTTTTS-HHHHH--HHHCSEEEEE----HHHHHHHHHHHHHHTT--S-HHHHHHHHH
T ss_pred             CCCCccccccChhhhh--hHhhcchhhcCCCCHHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            456654   4577777  665  58999999999999999999988887888887777654

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.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.41  E-value=3.6e-12  Score=127.24  Aligned_cols=132  Identities=19%  Similarity=0.204  Sum_probs=91.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHH-------------------HHHhhCCceEEEEecc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRR-------------------LLVSTGNRSILVIEDI  301 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~-------------------ll~~~~~~~IL~iDEi  301 (455)
                      .+.+||.||||||||++++.+|..++.+++.++++......++.-                   +......+.+|++|||
T Consensus        64 ~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~~~g~illlDEi  143 (327)
T TIGR01650        64 DRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWALQHNVALCFDEY  143 (327)
T ss_pred             CCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHHhCCeEEEechh
Confidence            578999999999999999999999999999998765422211100                   0112245788999999


Q ss_pred             cchhhhhhhcCCCCCCCCcchhhHhhhhhh-----hhcc--cccCCCceEEEEEcCCCC------------CCCccccCC
Q 047029          302 DCSIELENRQCGGGYDENNSQVTLSGLLNF-----VDGL--WSSCGDERIIVFTTNYKE------------RLDPALLRP  362 (455)
Q Consensus       302 D~l~~~~~~~~~~~~~~~~~~~~ls~LL~~-----ldg~--~~~~~~~~ivI~TTN~~~------------~Ld~allRp  362 (455)
                      |.+-+             .....+..+|+.     +++.  .-.......+|+|.|..+            .+++|++. 
T Consensus       144 n~a~p-------------~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~~l~~A~lD-  209 (327)
T TIGR01650       144 DAGRP-------------DVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGDTTGLYHGTQQINQAQMD-  209 (327)
T ss_pred             hccCH-------------HHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCCCCcceeeeecCCHHHHh-
Confidence            97632             122233334432     1110  001123467899999865            36899999 


Q ss_pred             CceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          363 GRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       363 GR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                       ||-+.+.++||+.++-.+|+....
T Consensus       210 -RF~i~~~~~Yp~~e~E~~Il~~~~  233 (327)
T TIGR01650       210 -RWSIVTTLNYLEHDNEAAIVLAKA  233 (327)
T ss_pred             -heeeEeeCCCCCHHHHHHHHHhhc
Confidence             998899999999999999887654

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.

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=99.40  E-value=2.9e-12  Score=141.72  Aligned_cols=159  Identities=16%  Similarity=0.271  Sum_probs=111.4

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHH
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLL  287 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll  287 (455)
                      .++|+++.++.|.+.+.....+-   .. ...|...+||+||||||||.+|+++|..++.+++.++++.......+.+++
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl---~~-~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~Li  534 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGL---GH-EHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLI  534 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccc---cC-CCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHc
Confidence            46788888888888776432210   00 011233699999999999999999999999999999988753322222221


Q ss_pred             ---------------H---hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhh-cccccC------CCc
Q 047029          288 ---------------V---STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVD-GLWSSC------GDE  342 (455)
Q Consensus       288 ---------------~---~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ld-g~~~~~------~~~  342 (455)
                                     .   .....+||+|||||.+-+                ...+.|++.|| |.....      -.+
T Consensus       535 G~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~----------------~v~~~LLq~ld~G~ltd~~g~~vd~rn  598 (758)
T PRK11034        535 GAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHP----------------DVFNLLLQVMDNGTLTDNNGRKADFRN  598 (758)
T ss_pred             CCCCCcccccccchHHHHHHhCCCcEEEeccHhhhhH----------------HHHHHHHHHHhcCeeecCCCceecCCC
Confidence                           1   113458999999998743                35677888887 322111      146


Q ss_pred             eEEEEEcCCC-------------------------CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          343 RIIVFTTNYK-------------------------ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       343 ~ivI~TTN~~-------------------------~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      .+||+|||.-                         ..+.|.++.  |+|..|.|...+.++..+|+..++.
T Consensus       599 ~iiI~TsN~g~~~~~~~~~g~~~~~~~~~~~~~~~~~f~pefl~--Rid~ii~f~~L~~~~l~~I~~~~l~  667 (758)
T PRK11034        599 VVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIV  667 (758)
T ss_pred             cEEEEeCCcCHHHHhhcccCcccchhhHHHHHHHHHhcCHHHHc--cCCEEEEcCCCCHHHHHHHHHHHHH
Confidence            7899999922                         125567777  9999999999999999999988775

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.40  E-value=1.8e-11  Score=126.48  Aligned_cols=159  Identities=19%  Similarity=0.175  Sum_probs=105.1

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEeccccCC
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELASLRS  279 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~~~~~  279 (455)
                      ..+.+++-++..++|...+...+.+         ..+.++++|||||||||++++.+++.+     +..++.+++....+
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~---------~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~   98 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRG---------SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRT   98 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCC
Confidence            3456777676667776666544332         124579999999999999999999987     46788888754321


Q ss_pred             h-----------------------HHHHHH----HHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhh
Q 047029          280 N-----------------------SDLRRL----LVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFV  332 (455)
Q Consensus       280 ~-----------------------~~l~~l----l~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~l  332 (455)
                      .                       ..+...    +.....+.||+|||+|.+..            ......+..|+..+
T Consensus        99 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~------------~~~~~~l~~l~~~~  166 (394)
T PRK00411         99 RYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFE------------KEGNDVLYSLLRAH  166 (394)
T ss_pred             HHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhc------------cCCchHHHHHHHhh
Confidence            1                       111111    11223458999999998751            11123455566655


Q ss_pred             hcccccCCCceEEEEEcCCC---CCCCccccCCCce-eEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          333 DGLWSSCGDERIIVFTTNYK---ERLDPALLRPGRM-DMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       333 dg~~~~~~~~~ivI~TTN~~---~~Ld~allRpGR~-d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      +...   +.++.+|+++|..   +.+++.+.+  |+ ...|+|++++.++..++++..+..
T Consensus       167 ~~~~---~~~v~vI~i~~~~~~~~~l~~~~~s--~~~~~~i~f~py~~~e~~~il~~r~~~  222 (394)
T PRK00411        167 EEYP---GARIGVIGISSDLTFLYILDPRVKS--VFRPEEIYFPPYTADEIFDILKDRVEE  222 (394)
T ss_pred             hccC---CCeEEEEEEECCcchhhhcCHHHHh--cCCcceeecCCCCHHHHHHHHHHHHHh
Confidence            5432   2357788888865   457777766  55 357899999999999999988753

>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=99.40  E-value=3.9e-12  Score=110.64  Aligned_cols=115  Identities=29%  Similarity=0.390  Sum_probs=80.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHHH-----------HHHHhhCCceEEEEecccchhh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDLR-----------RLLVSTGNRSILVIEDIDCSIE  306 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l~-----------~ll~~~~~~~IL~iDEiD~l~~  306 (455)
                      .++++++||||||||++++++++.+   +.+++.+++..........           ........+.+|+|||++.+..
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lilDe~~~~~~   98 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLSR   98 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhhhHhHHHHhhccCCCeEEEEeChhhhhH
Confidence            5689999999999999999999999   8899999887654332221           1122334689999999997622


Q ss_pred             hhhhcCCCCCCCCcchhhHhhhhhhhhccccc--CCCceEEEEEcCCCC--CCCccccCCCceeEEEEeCC
Q 047029          307 LENRQCGGGYDENNSQVTLSGLLNFVDGLWSS--CGDERIIVFTTNYKE--RLDPALLRPGRMDMHIHMSY  373 (455)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~--~~~~~ivI~TTN~~~--~Ld~allRpGR~d~~I~~~~  373 (455)
                                      .....++..+......  ...+..+|+++|...  .+++.+..  |++.++.+++
T Consensus        99 ----------------~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~~~~~~--r~~~~i~~~~  151 (151)
T cd00009          99 ----------------GAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYD--RLDIRIVIPL  151 (151)
T ss_pred             ----------------HHHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcChhHHh--hhccEeecCC
Confidence                            1233444444443221  124578888998776  77888888  9998888763

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.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.39  E-value=3.9e-12  Score=131.38  Aligned_cols=174  Identities=21%  Similarity=0.245  Sum_probs=109.8

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhh----hcCC-CCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC---
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSR----VGKA-WKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS---  279 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~----~g~~-~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~---  279 (455)
                      .++|+++.|+.+...+....++-.....    -+++ .+.++||+||||||||++|+++|..++.++..++++.+..   
T Consensus        78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L~~~gy  157 (413)
T TIGR00382        78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGY  157 (413)
T ss_pred             eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhcccccc
Confidence            4588999998887776443333110000    0111 1468999999999999999999999999999888766521   


Q ss_pred             -----hHHHHHHHHh------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc---C------
Q 047029          280 -----NSDLRRLLVS------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS---C------  339 (455)
Q Consensus       280 -----~~~l~~ll~~------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~---~------  339 (455)
                           ...+..++..      ...++||||||||.+...  +...+...+.....+.+.||..|||....   .      
T Consensus       158 vG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~--~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~gr~~~  235 (413)
T TIGR00382       158 VGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRK--SENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGRKHP  235 (413)
T ss_pred             ccccHHHHHHHHHHhCcccHHhcccceEEecccchhchh--hccccccccccchhHHHHHHHHhhccceecccCCCcccc
Confidence                 1223333332      235789999999988641  11111111111224667788888876432   1      


Q ss_pred             CCceEEEEEcCCCC--------------------------------------------------CCCccccCCCceeEEE
Q 047029          340 GDERIIVFTTNYKE--------------------------------------------------RLDPALLRPGRMDMHI  369 (455)
Q Consensus       340 ~~~~ivI~TTN~~~--------------------------------------------------~Ld~allRpGR~d~~I  369 (455)
                      ..+.++|+|+|-..                                                  .+.|+|+  ||+|..+
T Consensus       236 ~~~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEfl--gRld~Iv  313 (413)
T TIGR00382       236 YQEFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFI--GRLPVIA  313 (413)
T ss_pred             CCCeEEEEcCCceeeecccccChHHHHHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHh--CCCCeEe
Confidence            13467889988610                                                  0123333  5999999


Q ss_pred             EeCCCCHHHHHHHHHH
Q 047029          370 HMSYLTPGGFKILAFN  385 (455)
Q Consensus       370 ~~~~p~~~~~~~L~~~  385 (455)
                      .|...+.++...|+..
T Consensus       314 ~f~pL~~~~L~~Il~~  329 (413)
T TIGR00382       314 TLEKLDEEALIAILTK  329 (413)
T ss_pred             ecCCCCHHHHHHHHHH
Confidence            9999999988877765

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.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.39  E-value=1.1e-11  Score=125.56  Aligned_cols=130  Identities=26%  Similarity=0.274  Sum_probs=92.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHH------HHHH------HhhCC---ce---EEEEeccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDL------RRLL------VSTGN---RS---ILVIEDID  302 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l------~~ll------~~~~~---~~---IL~iDEiD  302 (455)
                      .+.+||-||||||||++|+++|..++.+++.+.|+.-...+++      ....      .-...   ..   |+++|||+
T Consensus        43 ~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~~~~~~~~~~~~~~~~~gpl~~~~~~ill~DEIn  122 (329)
T COG0714          43 GGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVPGPLFAAVRVILLLDEIN  122 (329)
T ss_pred             CCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCchhHhhhhccCCeEEEecCCcccccceEEEEeccc
Confidence            5689999999999999999999999999999999864332222      2111      00111   13   99999999


Q ss_pred             chhhhhhhcCCCCCCCCcchhhHhhhhhhhhc-------cc-ccCCCceEEEEEcC-----CCCCCCccccCCCceeEEE
Q 047029          303 CSIELENRQCGGGYDENNSQVTLSGLLNFVDG-------LW-SSCGDERIIVFTTN-----YKERLDPALLRPGRMDMHI  369 (455)
Q Consensus       303 ~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg-------~~-~~~~~~~ivI~TTN-----~~~~Ld~allRpGR~d~~I  369 (455)
                      ...+                .+.+.||..|+.       .. -.-+...++|+|+|     ....|++|+++  ||.+.+
T Consensus       123 ra~p----------------~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~Np~e~~g~~~l~eA~ld--Rf~~~~  184 (329)
T COG0714         123 RAPP----------------EVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPLPEALLD--RFLLRI  184 (329)
T ss_pred             cCCH----------------HHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccCccccCCCcCCCHHHHh--hEEEEE
Confidence            7532                566777777764       11 12224567888889     44568999999  999999


Q ss_pred             EeCCC-CHHHHHHHHHHhhc
Q 047029          370 HMSYL-TPGGFKILAFNYLK  388 (455)
Q Consensus       370 ~~~~p-~~~~~~~L~~~~l~  388 (455)
                      .++|| ..++...+......
T Consensus       185 ~v~yp~~~~e~~~i~~~~~~  204 (329)
T COG0714         185 YVDYPDSEEEERIILARVGG  204 (329)
T ss_pred             ecCCCCchHHHHHHHHhCcc
Confidence            99999 55555555555544

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.39  E-value=6.3e-12  Score=134.14  Aligned_cols=143  Identities=20%  Similarity=0.275  Sum_probs=107.2

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC------ChHHHHHHHHhh--CCceEEEEecccchhhhhhh
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR------SNSDLRRLLVST--GNRSILVIEDIDCSIELENR  310 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~------~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~  310 (455)
                      .....+||+|+||||||++++++|.++|.+++.++|.++.      .+..+...|..+  .+|+|||+-++|.+..  ++
T Consensus       429 ~~~~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~~etkl~~~f~~a~~~~pavifl~~~dvl~i--d~  506 (953)
T KOG0736|consen  429 TLNPSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASHTETKLQAIFSRARRCSPAVLFLRNLDVLGI--DQ  506 (953)
T ss_pred             ccceEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccchhHHHHHHHHHHHhhcCceEEEEeccceeee--cC
Confidence            3345699999999999999999999999999999998873      345677777655  3799999999998752  11


Q ss_pred             cCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          311 QCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       311 ~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      .   ++.+-.....+..++. +|-... ....+++|+||+..+.|++.+.+  -|-..|.++.|++++|.++++.|+...
T Consensus       507 d---gged~rl~~~i~~~ls-~e~~~~-~~~~~ivv~t~~s~~~lp~~i~~--~f~~ei~~~~lse~qRl~iLq~y~~~~  579 (953)
T KOG0736|consen  507 D---GGEDARLLKVIRHLLS-NEDFKF-SCPPVIVVATTSSIEDLPADIQS--LFLHEIEVPALSEEQRLEILQWYLNHL  579 (953)
T ss_pred             C---CchhHHHHHHHHHHHh-cccccC-CCCceEEEEeccccccCCHHHHH--hhhhhccCCCCCHHHHHHHHHHHHhcc
Confidence            1   1111111222233333 222222 23679999999999999999999  888899999999999999999998754

>PRK06620 hypothetical protein; Validated

Probab=99.38  E-value=1.8e-11  Score=116.50  Aligned_cols=165  Identities=18%  Similarity=0.247  Sum_probs=102.1

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCC-CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAW-KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS  276 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~-~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~  276 (455)
                      ++.++..+||+++..+.-. .....+..+...      ++..+ .+.++||||||||||||++++|+..+..+..  ...
T Consensus         7 ~~~~~~~tfd~Fvvg~~N~-~a~~~~~~~~~~------~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~--~~~   77 (214)
T PRK06620          7 FTTSSKYHPDEFIVSSSND-QAYNIIKNWQCG------FGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNAYIIK--DIF   77 (214)
T ss_pred             CCCCCCCCchhhEecccHH-HHHHHHHHHHHc------cccCCCcceEEEECCCCCCHHHHHHHHHhccCCEEcc--hhh
Confidence            3445556899987644222 234444433221      23333 3789999999999999999999988753322  111


Q ss_pred             cCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC--
Q 047029          277 LRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER--  354 (455)
Q Consensus       277 ~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~--  354 (455)
                      .  .   ...   .....+|+|||||.+-                ...+..++|.+.   ..  +..+++.++..|..  
T Consensus        78 ~--~---~~~---~~~~d~lliDdi~~~~----------------~~~lf~l~N~~~---e~--g~~ilits~~~p~~l~  128 (214)
T PRK06620         78 F--N---EEI---LEKYNAFIIEDIENWQ----------------EPALLHIFNIIN---EK--QKYLLLTSSDKSRNFT  128 (214)
T ss_pred             h--c---hhH---HhcCCEEEEeccccch----------------HHHHHHHHHHHH---hc--CCEEEEEcCCCccccc
Confidence            0  1   111   1245799999999531                123444444433   22  34566665554443  


Q ss_pred             CCccccCCCcee--EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhc
Q 047029          355 LDPALLRPGRMD--MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIK  403 (455)
Q Consensus       355 Ld~allRpGR~d--~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~  403 (455)
                      + |+|+.  |+.  ..+.+..|+.+.+.+++++.....+..+.+++.+.+.
T Consensus       129 l-~~L~S--Rl~~gl~~~l~~pd~~~~~~~l~k~~~~~~l~l~~ev~~~L~  176 (214)
T PRK06620        129 L-PDLSS--RIKSVLSILLNSPDDELIKILIFKHFSISSVTISRQIIDFLL  176 (214)
T ss_pred             h-HHHHH--HHhCCceEeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            5 78888  775  4799999999999999998877555556666655543

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=99.38  E-value=5.4e-12  Score=132.69  Aligned_cols=166  Identities=17%  Similarity=0.319  Sum_probs=129.1

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc-------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD-------------  268 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~-------------  268 (455)
                      .|.+|++++|++.+.+.|.+.+..            ..-..+|||.||.||||||+|+.+|+.+++.             
T Consensus        11 RP~~F~evvGQe~v~~~L~nal~~------------~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~   78 (515)
T COG2812          11 RPKTFDDVVGQEHVVKTLSNALEN------------GRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCIS   78 (515)
T ss_pred             CcccHHHhcccHHHHHHHHHHHHh------------CcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhh
Confidence            378999999999999999887762            1124589999999999999999999998643             


Q ss_pred             -----------EEEEeccccCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          269 -----------IYDMELASLRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       269 -----------v~~l~~~~~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                 ++.+|..+-.+-++++++.....      +..|.+|||++.+.                ....+.||..
T Consensus        79 Ck~I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS----------------~~afNALLKT  142 (515)
T COG2812          79 CKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLS----------------KQAFNALLKT  142 (515)
T ss_pred             hHhhhcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhh----------------HHHHHHHhcc
Confidence                       33333333345577788876653      45799999999873                3556777777


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                      ++.    .+..+++|++|-.+.++++.+++  |+ .++.|...+.++....+...+..++....++.-.++
T Consensus       143 LEE----PP~hV~FIlATTe~~Kip~TIlS--Rc-q~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~i  206 (515)
T COG2812         143 LEE----PPSHVKFILATTEPQKIPNTILS--RC-QRFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLI  206 (515)
T ss_pred             ccc----CccCeEEEEecCCcCcCchhhhh--cc-ccccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHH
Confidence            654    45789999999999999999999  88 579999999999999999999887766655444443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.37  E-value=1.4e-11  Score=134.20  Aligned_cols=193  Identities=20%  Similarity=0.209  Sum_probs=125.7

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEEEeccc
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYDMELAS  276 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~l~~~~  276 (455)
                      +.|.+-++..++|...|...+.+        -.+...+++|||||||||++++.+.+++          .+.++.++|..
T Consensus       755 D~LPhREeEIeeLasfL~paIkg--------sgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~  826 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQ--------SGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMN  826 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhc--------CCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCc
Confidence            56777777777777777665543        1223345799999999999999998877          25678888865


Q ss_pred             cCCh-----------------------HHHHHHHHhh----CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhh
Q 047029          277 LRSN-----------------------SDLRRLLVST----GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLL  329 (455)
Q Consensus       277 ~~~~-----------------------~~l~~ll~~~----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL  329 (455)
                      +...                       ..+..+|...    ....||+|||||.+..             ..+..+-.|+
T Consensus       827 Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~k-------------K~QDVLYnLF  893 (1164)
T PTZ00112        827 VVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLIT-------------KTQKVLFTLF  893 (1164)
T ss_pred             cCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCc-------------cHHHHHHHHH
Confidence            4221                       2233344332    1246999999999853             1123333333


Q ss_pred             hhhhcccccCCCceEEEEEcCC---CCCCCccccCCCceeE-EEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhccc
Q 047029          330 NFVDGLWSSCGDERIIVFTTNY---KERLDPALLRPGRMDM-HIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEV  405 (455)
Q Consensus       330 ~~ldg~~~~~~~~~ivI~TTN~---~~~Ld~allRpGR~d~-~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~~  405 (455)
                      +.   ... .+..++||+++|.   ++.|+|.+..  ||.. .|.|++++.+++..|++..+......+.+++-++|.+.
T Consensus       894 R~---~~~-s~SKLiLIGISNdlDLperLdPRLRS--RLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArk  967 (1164)
T PTZ00112        894 DW---PTK-INSKLVLIAISNTMDLPERLIPRCRS--RLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARK  967 (1164)
T ss_pred             HH---hhc-cCCeEEEEEecCchhcchhhhhhhhh--ccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHh
Confidence            32   211 2345788889985   6678888887  6654 48889999999999999888754334455555555331


Q ss_pred             cCchhHHHhccCCHHHHHHHHHHHHHH
Q 047029          406 EVTPAEEFMKSEDADVALNGLVDFLLR  432 (455)
Q Consensus       406 ~~tpa~~l~~~~~~~~al~~l~~~l~~  432 (455)
                      .      .....|+..||+.+..+.+.
T Consensus       968 V------Aq~SGDARKALDILRrAgEi  988 (1164)
T PTZ00112        968 V------ANVSGDIRKALQICRKAFEN  988 (1164)
T ss_pred             h------hhcCCHHHHHHHHHHHHHhh
Confidence            0      12246777788777777654

>PHA02244 ATPase-like protein

Probab=99.36  E-value=9.8e-12  Score=125.56  Aligned_cols=119  Identities=21%  Similarity=0.289  Sum_probs=82.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc----c----CChHHHH--HHHHhhCCceEEEEecccchhhhhhh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS----L----RSNSDLR--RLLVSTGNRSILVIEDIDCSIELENR  310 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~----~----~~~~~l~--~ll~~~~~~~IL~iDEiD~l~~~~~~  310 (455)
                      +..+||+||||||||++|++||..++.+++.++...    +    .....+.  .++....++.+|+|||++.+.+    
T Consensus       119 ~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~~g~~~dgpLl~A~~~GgvLiLDEId~a~p----  194 (383)
T PHA02244        119 NIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDANGKFHETPFYEAFKKGGLFFIDEIDASIP----  194 (383)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccccccccchHHHHHhhcCCEEEEeCcCcCCH----
Confidence            457999999999999999999999999999886321    0    1111111  3334456789999999997632    


Q ss_pred             cCCCCCCCCcchhhHhhhhhhhh--------cccccCCCceEEEEEcCCC-----------CCCCccccCCCceeEEEEe
Q 047029          311 QCGGGYDENNSQVTLSGLLNFVD--------GLWSSCGDERIIVFTTNYK-----------ERLDPALLRPGRMDMHIHM  371 (455)
Q Consensus       311 ~~~~~~~~~~~~~~ls~LL~~ld--------g~~~~~~~~~ivI~TTN~~-----------~~Ld~allRpGR~d~~I~~  371 (455)
                                  .++..|...++        +.. ....+..+|+|+|.+           ..|++|++.  || .+|++
T Consensus       195 ------------~vq~~L~~lLd~r~l~l~g~~i-~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~AllD--RF-v~I~~  258 (383)
T PHA02244        195 ------------EALIIINSAIANKFFDFADERV-TAHEDFRVISAGNTLGKGADHIYVARNKIDGATLD--RF-APIEF  258 (383)
T ss_pred             ------------HHHHHHHHHhccCeEEecCcEE-ecCCCEEEEEeeCCCccCcccccCCCcccCHHHHh--hc-EEeeC
Confidence                        22333333332        221 122457899999973           578999999  99 68999


Q ss_pred             CCCCHHHH
Q 047029          372 SYLTPGGF  379 (455)
Q Consensus       372 ~~p~~~~~  379 (455)
                      +||+..+.
T Consensus       259 dyp~~~E~  266 (383)
T PHA02244        259 DYDEKIEH  266 (383)
T ss_pred             CCCcHHHH
Confidence            99985443

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.35  E-value=4.3e-12  Score=128.05  Aligned_cols=156  Identities=22%  Similarity=0.251  Sum_probs=104.6

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC-------CcE--EEE
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK-------FDI--YDM  272 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~-------~~v--~~l  272 (455)
                      .|.+|+.++|++++++.+.-.+..             +...++||+||||||||++++++|+.+.       .++  ..+
T Consensus         3 ~~~~f~~i~Gq~~~~~~l~~~~~~-------------~~~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~   69 (334)
T PRK13407          3 KPFPFSAIVGQEEMKQAMVLTAID-------------PGIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARP   69 (334)
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHhc-------------cCCCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcc
Confidence            467899999999998877643311             1124799999999999999999999982       211  100


Q ss_pred             e----c--------------------c----ccCChHHHHHHHH-----------hhCCceEEEEecccchhhhhhhcCC
Q 047029          273 E----L--------------------A----SLRSNSDLRRLLV-----------STGNRSILVIEDIDCSIELENRQCG  313 (455)
Q Consensus       273 ~----~--------------------~----~~~~~~~l~~ll~-----------~~~~~~IL~iDEiD~l~~~~~~~~~  313 (455)
                      .    +                    +    .+.+.-.+.+.+.           ...+..+|++|||+.+.+       
T Consensus        70 ~~~~~~~~~~~~~~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~~A~~GiL~lDEInrl~~-------  142 (334)
T PRK13407         70 EDCPEWAHVSSTTMIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYIDEVNLLED-------  142 (334)
T ss_pred             cCCcccccccCCcccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceEEcCCCeEEecChHhCCH-------
Confidence            0    0                    0    0111112222221           112346999999998732       


Q ss_pred             CCCCCCcchhhHhhhhhhhhcc---------cccCCCceEEEEEcCCCC-CCCccccCCCceeEEEEeCCCCH-HHHHHH
Q 047029          314 GGYDENNSQVTLSGLLNFVDGL---------WSSCGDERIIVFTTNYKE-RLDPALLRPGRMDMHIHMSYLTP-GGFKIL  382 (455)
Q Consensus       314 ~~~~~~~~~~~ls~LL~~ldg~---------~~~~~~~~ivI~TTN~~~-~Ld~allRpGR~d~~I~~~~p~~-~~~~~L  382 (455)
                               .+++.|++.|+.-         ....+...++|+|+|..+ .++++++.  ||.++|.+++|.. +++.++
T Consensus       143 ---------~~q~~Lle~mee~~v~v~r~G~~~~~p~rfiviAt~NP~e~~l~~aLld--RF~~~v~v~~~~~~~e~~~i  211 (334)
T PRK13407        143 ---------HIVDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEGELRPQLLD--RFGLSVEVRSPRDVETRVEV  211 (334)
T ss_pred             ---------HHHHHHHHHHHcCCeEEEECCeEEecCCCEEEEecCCcccCCCCHHHHh--hcceEEEcCCCCcHHHHHHH
Confidence                     5567777777532         222334578888888755 58999999  9999999999988 888888


Q ss_pred             HHHhhc
Q 047029          383 AFNYLK  388 (455)
Q Consensus       383 ~~~~l~  388 (455)
                      +.+...
T Consensus       212 l~~~~~  217 (334)
T PRK13407        212 IRRRDA  217 (334)
T ss_pred             HHHhhc
Confidence            887654

>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=99.34  E-value=1.8e-12  Score=114.42  Aligned_cols=105  Identities=30%  Similarity=0.415  Sum_probs=72.9

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHH---------------hhCCceEEEEecccchhhh
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLV---------------STGNRSILVIEDIDCSIEL  307 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~---------------~~~~~~IL~iDEiD~l~~~  307 (455)
                      ++||+||||||||++|+.+|+.++.+++.+.++...+..++.....               ...++.|++||||+.+-  
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin~a~--   78 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEINRAP--   78 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCGG----
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcccCC--
Confidence            5899999999999999999999999999999887655444432211               11147899999999752  


Q ss_pred             hhhcCCCCCCCCcchhhHhhhhhhhhccccc----------CCC-----ceEEEEEcCCCC----CCCccccCCCce
Q 047029          308 ENRQCGGGYDENNSQVTLSGLLNFVDGLWSS----------CGD-----ERIIVFTTNYKE----RLDPALLRPGRM  365 (455)
Q Consensus       308 ~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~----------~~~-----~~ivI~TTN~~~----~Ld~allRpGR~  365 (455)
                                    ...+..|++.+|.-.-.          ...     +..+|+|+|..+    .+++||++  ||
T Consensus        79 --------------~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~l~~al~~--Rf  139 (139)
T PF07728_consen   79 --------------PEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKELSPALLD--RF  139 (139)
T ss_dssp             --------------HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTTTCHHHHT--T-
T ss_pred             --------------HHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCcCCHHHHh--hC
Confidence                          23445555555422110          011     378999999888    89999999  87

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.34  E-value=1.9e-11  Score=133.18  Aligned_cols=174  Identities=21%  Similarity=0.348  Sum_probs=114.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEE
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIY  270 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~  270 (455)
                      -.|.+|++++|.....+.+++.+.             .+.+..++|+||||||||++|+++++..          +.+++
T Consensus       148 ~rp~~~~~iiGqs~~~~~l~~~ia-------------~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv  214 (615)
T TIGR02903       148 LRPRAFSEIVGQERAIKALLAKVA-------------SPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFV  214 (615)
T ss_pred             cCcCcHHhceeCcHHHHHHHHHHh-------------cCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeE
Confidence            348899999999888877655442             1225579999999999999999998776          34678


Q ss_pred             EEeccccCC-hHHH----------------HHHHHh------------hCCceEEEEecccchhhhhhhcCCCCCCCCcc
Q 047029          271 DMELASLRS-NSDL----------------RRLLVS------------TGNRSILVIEDIDCSIELENRQCGGGYDENNS  321 (455)
Q Consensus       271 ~l~~~~~~~-~~~l----------------~~ll~~------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~  321 (455)
                      .+++..+.. ...+                .+.+..            ..++.+|||||++.+-.               
T Consensus       215 ~i~~~~l~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~---------------  279 (615)
T TIGR02903       215 EVDGTTLRWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDP---------------  279 (615)
T ss_pred             EEechhccCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCH---------------
Confidence            888765421 1111                111111            12457999999998732               


Q ss_pred             hhhHhhhhhhhhcc--------c----------------ccCCCceEEEE-EcCCCCCCCccccCCCceeEEEEeCCCCH
Q 047029          322 QVTLSGLLNFVDGL--------W----------------SSCGDERIIVF-TTNYKERLDPALLRPGRMDMHIHMSYLTP  376 (455)
Q Consensus       322 ~~~ls~LL~~ldg~--------~----------------~~~~~~~ivI~-TTN~~~~Ld~allRpGR~d~~I~~~~p~~  376 (455)
                       .....|+..++.-        +                ...+..+++|+ ||+.++.++++|++  ||. .++++.++.
T Consensus       280 -~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrS--R~~-~i~~~pls~  355 (615)
T TIGR02903       280 -LLQNKLLKVLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRS--RCA-EVFFEPLTP  355 (615)
T ss_pred             -HHHHHHHHHHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHh--cee-EEEeCCCCH
Confidence             1223333333210        0                01122345554 66778899999998  996 578999999


Q ss_pred             HHHHHHHHHhhcccCCCchHHHHHhhcccc
Q 047029          377 GGFKILAFNYLKIKSHSMFDEIEELIKEVE  406 (455)
Q Consensus       377 ~~~~~L~~~~l~~~~~~l~~ei~~ll~~~~  406 (455)
                      ++...|+++++......+.+++.+++.+..
T Consensus       356 edi~~Il~~~a~~~~v~ls~eal~~L~~ys  385 (615)
T TIGR02903       356 EDIALIVLNAAEKINVHLAAGVEELIARYT  385 (615)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHCC
Confidence            999999999887655455566666665543

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.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.33  E-value=4e-11  Score=122.75  Aligned_cols=153  Identities=19%  Similarity=0.284  Sum_probs=111.9

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC------------
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF------------  267 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~------------  267 (455)
                      ..+|++|++|+|++++++.+.+.+..            ...+..+||+||+|+||+++|.++|+.+-+            
T Consensus        12 ~~~P~~~~~iiGq~~~~~~L~~~~~~------------~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~   79 (365)
T PRK07471         12 APHPRETTALFGHAAAEAALLDAYRS------------GRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPP   79 (365)
T ss_pred             CCCCCchhhccChHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccc
Confidence            36899999999999999988876652            233568999999999999999999998832            


Q ss_pred             ----------------------cEEEEecc--cc-------CChHHHHHHHHhh------CCceEEEEecccchhhhhhh
Q 047029          268 ----------------------DIYDMELA--SL-------RSNSDLRRLLVST------GNRSILVIEDIDCSIELENR  310 (455)
Q Consensus       268 ----------------------~v~~l~~~--~~-------~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~  310 (455)
                                            +++.+...  +-       ..-.+++++....      ..+.|++|||+|.+-     
T Consensus        80 ~~~l~~~~~c~~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~-----  154 (365)
T PRK07471         80 PTSLAIDPDHPVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMN-----  154 (365)
T ss_pred             cccccCCCCChHHHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcC-----
Confidence                                  12222210  10       1124455554332      246799999999762     


Q ss_pred             cCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          311 QCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       311 ~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                                 ....+.||..++.-    +...++|++|+.++.+.|.+++  |+ .+|.|+.|+.++..+++....
T Consensus       155 -----------~~aanaLLK~LEep----p~~~~~IL~t~~~~~llpti~S--Rc-~~i~l~~l~~~~i~~~L~~~~  213 (365)
T PRK07471        155 -----------ANAANALLKVLEEP----PARSLFLLVSHAPARLLPTIRS--RC-RKLRLRPLAPEDVIDALAAAG  213 (365)
T ss_pred             -----------HHHHHHHHHHHhcC----CCCeEEEEEECCchhchHHhhc--cc-eEEECCCCCHHHHHHHHHHhc
Confidence                       24566778777653    2457888899999999999888  88 689999999999888887654

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.33  E-value=1.6e-11  Score=129.13  Aligned_cols=175  Identities=17%  Similarity=0.307  Sum_probs=111.1

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEecccc
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELASL  277 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~~~  277 (455)
                      +.|||+++..+.- +.....+..+...+      |.. .++++||||+|||||+|++|+++++     +..++++...++
T Consensus       111 ~~tFdnFv~g~~n-~~A~~aa~~~a~~~------~~~-~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f  182 (450)
T PRK14087        111 ENTFENFVIGSSN-EQAFIAVQTVSKNP------GIS-YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEF  182 (450)
T ss_pred             ccchhcccCCCcH-HHHHHHHHHHHhCc------Ccc-cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHH
Confidence            4789988754432 22334444333222      222 3579999999999999999999976     467777776554


Q ss_pred             CCh---------HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEE
Q 047029          278 RSN---------SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFT  348 (455)
Q Consensus       278 ~~~---------~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~T  348 (455)
                      ...         ..+.+......+..+|+|||++.+..              ...+...|...++.+...  + ..+|+|
T Consensus       183 ~~~~~~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l~~--------------k~~~~e~lf~l~N~~~~~--~-k~iIlt  245 (450)
T PRK14087        183 ARKAVDILQKTHKEIEQFKNEICQNDVLIIDDVQFLSY--------------KEKTNEIFFTIFNNFIEN--D-KQLFFS  245 (450)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHhccCCEEEEeccccccC--------------CHHHHHHHHHHHHHHHHc--C-CcEEEE
Confidence            211         22333334456678999999997632              112333444444444332  2 246667


Q ss_pred             cCC-CC---CCCccccCCCce--eEEEEeCCCCHHHHHHHHHHhhcccCC--CchHHHHHhhcc
Q 047029          349 TNY-KE---RLDPALLRPGRM--DMHIHMSYLTPGGFKILAFNYLKIKSH--SMFDEIEELIKE  404 (455)
Q Consensus       349 TN~-~~---~Ld~allRpGR~--d~~I~~~~p~~~~~~~L~~~~l~~~~~--~l~~ei~~ll~~  404 (455)
                      +|. |+   .+++.|..  ||  ...+.+..|+.+++.+++++.+...+.  .+.+++...+.+
T Consensus       246 sd~~P~~l~~l~~rL~S--R~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~  307 (450)
T PRK14087        246 SDKSPELLNGFDNRLIT--RFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISN  307 (450)
T ss_pred             CCCCHHHHhhccHHHHH--HHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHH
Confidence            664 33   46788888  77  478899999999999999998876542  455665555543

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=99.33  E-value=1.4e-11  Score=137.06  Aligned_cols=155  Identities=19%  Similarity=0.287  Sum_probs=108.9

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCC---Cc-eeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh---
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAW---KR-GYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN---  280 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~---~r-g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~---  280 (455)
                      .++|+++.++.|.+.+..        .+.|...   |. .+||+||||||||++|+++|..++.+++.++++.....   
T Consensus       455 ~v~GQ~~ai~~l~~~i~~--------~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~~  526 (731)
T TIGR02639       455 KIFGQDEAIDSLVSSIKR--------SRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHTV  526 (731)
T ss_pred             ceeCcHHHHHHHHHHHHH--------HhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcccH
Confidence            456777777766665542        1234321   33 48999999999999999999999999999998765321   


Q ss_pred             ----------------HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccc--cC---
Q 047029          281 ----------------SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS--SC---  339 (455)
Q Consensus       281 ----------------~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~--~~---  339 (455)
                                      ..+.+.+. ....+||+|||||.+-+                ...+.|+..+|...-  ..   
T Consensus       527 ~~lig~~~gyvg~~~~~~l~~~~~-~~p~~VvllDEieka~~----------------~~~~~Ll~~ld~g~~~d~~g~~  589 (731)
T TIGR02639       527 SRLIGAPPGYVGFEQGGLLTEAVR-KHPHCVLLLDEIEKAHP----------------DIYNILLQVMDYATLTDNNGRK  589 (731)
T ss_pred             HHHhcCCCCCcccchhhHHHHHHH-hCCCeEEEEechhhcCH----------------HHHHHHHHhhccCeeecCCCcc
Confidence                            12333332 23568999999997632                356677888774311  11   


Q ss_pred             --CCceEEEEEcCCCC-------------------------CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          340 --GDERIIVFTTNYKE-------------------------RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       340 --~~~~ivI~TTN~~~-------------------------~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                        -.+.+||+|||...                         .+.|.++.  |||..|.|.+.+.++..+|++..+..
T Consensus       590 vd~~~~iii~Tsn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~--Rid~Vi~F~pLs~e~l~~Iv~~~L~~  664 (731)
T TIGR02639       590 ADFRNVILIMTSNAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRN--RLDAIIHFNPLSEEVLEKIVQKFVDE  664 (731)
T ss_pred             cCCCCCEEEECCCcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHh--cCCeEEEcCCCCHHHHHHHHHHHHHH
Confidence              13578999998531                         24566665  99999999999999999999988763

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.32  E-value=1.4e-10  Score=116.62  Aligned_cols=148  Identities=15%  Similarity=0.226  Sum_probs=109.1

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--------cEEEEecc-
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------DIYDMELA-  275 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--------~v~~l~~~-  275 (455)
                      +|++++|++.+++.+.+.+.            ....+..||||||+|+|||++|+++|+.+.+        +++.+... 
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~------------~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~   69 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSII------------KNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPIN   69 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHH------------cCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEecccc
Confidence            68999999999988877764            2233668999999999999999999998732        34444331 


Q ss_pred             -ccCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEE
Q 047029          276 -SLRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFT  348 (455)
Q Consensus       276 -~~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~T  348 (455)
                       ...+-.+++.+....      ....|++|||+|.+-.                ...+.||..++.-    +++.++|++
T Consensus        70 ~~~i~v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m~~----------------~a~naLLK~LEep----p~~t~~il~  129 (313)
T PRK05564         70 KKSIGVDDIRNIIEEVNKKPYEGDKKVIIIYNSEKMTE----------------QAQNAFLKTIEEP----PKGVFIILL  129 (313)
T ss_pred             CCCCCHHHHHHHHHHHhcCcccCCceEEEEechhhcCH----------------HHHHHHHHHhcCC----CCCeEEEEE
Confidence             112335566666533      2457999999997632                3456788887753    456788888


Q ss_pred             cCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          349 TNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       349 TN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      |+.++.+-|.++.  |+ .+++|..|+.++....+...+
T Consensus       130 ~~~~~~ll~TI~S--Rc-~~~~~~~~~~~~~~~~l~~~~  165 (313)
T PRK05564        130 CENLEQILDTIKS--RC-QIYKLNRLSKEEIEKFISYKY  165 (313)
T ss_pred             eCChHhCcHHHHh--hc-eeeeCCCcCHHHHHHHHHHHh
Confidence            8889999999998  88 589999999998777666544

>PRK08181 transposase; Validated

Probab=99.30  E-value=1.9e-11  Score=119.91  Aligned_cols=152  Identities=22%  Similarity=0.391  Sum_probs=93.5

Q ss_pred             HhhhhHHHHHHHHHHhccceEEEeecCcccccccCCCCCCcccccC--HHHHHHHHHHHH---HHHHhHHHHhhhcCCCC
Q 047029          167 NKYLPYVAERSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMD--PVLKQALIDDLD---RFVKRREFYSRVGKAWK  241 (455)
Q Consensus       167 ~~yl~~v~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~tfd~l~g~--~~~k~~l~~~l~---~~l~~~~~~~~~g~~~~  241 (455)
                      .+||..+++...+.++.++..+     .+....|+.+.+|+++...  +.+.+..+..+.   .|+.           ..
T Consensus        43 ~e~L~~ll~~E~~~R~~~~~~r-----~lk~A~~p~~~tle~fd~~~~~~~~~~~~~~L~~~~~~~~-----------~~  106 (269)
T PRK08181         43 ARFLAAIAEHELAERARRRIER-----HLAEAHLPPGKTLDSFDFEAVPMVSKAQVMAIAAGDSWLA-----------KG  106 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-----HHHHCCCCCCCCHhhCCccCCCCCCHHHHHHHHHHHHHHh-----------cC
Confidence            4577777777766666554331     2333445556777776432  222233333332   2332           25


Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC-------ChHHHHHHHHhhCCceEEEEecccchhhhhhhc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR-------SNSDLRRLLVSTGNRSILVIEDIDCSIELENRQ  311 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~-------~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~  311 (455)
                      .+++|+||||||||+|+.|+|+++   |+.++.+....+.       ....+.+.+....+..+|+|||++....     
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l~~~dLLIIDDlg~~~~-----  181 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKLDKFDLLILDDLAYVTK-----  181 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHHhcCCEEEEeccccccC-----
Confidence            689999999999999999999876   7778777765542       1233455666667889999999987532     


Q ss_pred             CCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          312 CGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       312 ~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                               .......|++.++.....    .-+|+|||.+
T Consensus       182 ---------~~~~~~~Lf~lin~R~~~----~s~IiTSN~~  209 (269)
T PRK08181        182 ---------DQAETSVLFELISARYER----RSILITANQP  209 (269)
T ss_pred             ---------CHHHHHHHHHHHHHHHhC----CCEEEEcCCC
Confidence                     112233455555544322    3588899965

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.30  E-value=2.4e-10  Score=116.48  Aligned_cols=151  Identities=19%  Similarity=0.227  Sum_probs=108.6

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD------------  268 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~------------  268 (455)
                      .||..|+.|+|++++++.+...+..            ...+..+||+||+|+|||++|.++|+.+...            
T Consensus        17 ~~P~~~~~l~Gh~~a~~~L~~a~~~------------grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~   84 (351)
T PRK09112         17 PSPSENTRLFGHEEAEAFLAQAYRE------------GKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLAD   84 (351)
T ss_pred             CCCCchhhccCcHHHHHHHHHHHHc------------CCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCC
Confidence            6899999999999999888776651            1235589999999999999999999998541            


Q ss_pred             ------------------EEEEecc--c-------cCChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCC
Q 047029          269 ------------------IYDMELA--S-------LRSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGG  315 (455)
Q Consensus       269 ------------------v~~l~~~--~-------~~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~  315 (455)
                                        ++.+...  .       ..+-..++++....      ....|++|||+|.+-.         
T Consensus        85 ~~~~c~~c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~---------  155 (351)
T PRK09112         85 PDPASPVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNR---------  155 (351)
T ss_pred             CCCCCHHHHHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCH---------
Confidence                              1111100  0       00123444433221      2457999999998732         


Q ss_pred             CCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHh
Q 047029          316 YDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNY  386 (455)
Q Consensus       316 ~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~  386 (455)
                             ...+.||..++.-    +...++|+.|+.++.+.|.++.  |+ .+++++.++.++...++...
T Consensus       156 -------~aanaLLk~LEEp----p~~~~fiLit~~~~~llptIrS--Rc-~~i~l~pl~~~~~~~~L~~~  212 (351)
T PRK09112        156 -------NAANAILKTLEEP----PARALFILISHSSGRLLPTIRS--RC-QPISLKPLDDDELKKALSHL  212 (351)
T ss_pred             -------HHHHHHHHHHhcC----CCCceEEEEECChhhccHHHHh--hc-cEEEecCCCHHHHHHHHHHh
Confidence                   3456688887753    2456777778889999999988  88 69999999999998888874

>PRK07952 DNA replication protein DnaC; Validated

Probab=99.29  E-value=6e-12  Score=121.77  Aligned_cols=151  Identities=22%  Similarity=0.309  Sum_probs=94.2

Q ss_pred             HHHHhccceEEEeec-CcccccccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHH
Q 047029          178 KAIKETKKVIKLYSL-CAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSS  256 (455)
Q Consensus       178 ~~~~~~~~~~~~~~~-~~w~~~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTs  256 (455)
                      .++.+.++..++++. +.|.-.+..++.+||++....+..+.++..+..|...-   .    ....+++|+||||||||+
T Consensus        42 ~~i~~~~~q~~~~~~~~~s~i~~~~~~~tFdnf~~~~~~q~~al~~a~~~~~~~---~----~~~~~~~l~G~~GtGKTh  114 (244)
T PRK07952         42 AALERENRAMKMQRTFNRSGIRPLHQNCSFENYRVECEGQMNALSKARQYVEEF---D----GNIASFIFSGKPGTGKNH  114 (244)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCccccCCccccccCCCchHHHHHHHHHHHHHhh---c----cCCceEEEECCCCCCHHH
Confidence            344444444444333 23433344567899999876555555666666665431   1    113589999999999999


Q ss_pred             HHHHHHHHc---CCcEEEEeccccCC---------hHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhh
Q 047029          257 LIAAMANYL---KFDIYDMELASLRS---------NSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVT  324 (455)
Q Consensus       257 la~alA~~l---~~~v~~l~~~~~~~---------~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~  324 (455)
                      |+.|+|+++   +..++.++..++..         +....+++....+..+|+|||+++...           .......
T Consensus       115 La~aia~~l~~~g~~v~~it~~~l~~~l~~~~~~~~~~~~~~l~~l~~~dlLvIDDig~~~~-----------s~~~~~~  183 (244)
T PRK07952        115 LAAAICNELLLRGKSVLIITVADIMSAMKDTFSNSETSEEQLLNDLSNVDLLVIDEIGVQTE-----------SRYEKVI  183 (244)
T ss_pred             HHHHHHHHHHhcCCeEEEEEHHHHHHHHHHHHhhccccHHHHHHHhccCCEEEEeCCCCCCC-----------CHHHHHH
Confidence            999999998   77788777765421         123345666667789999999997521           1112223


Q ss_pred             HhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          325 LSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       325 ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                      +   .+.+|.-..   ....+|+|||..
T Consensus       184 l---~~Ii~~Ry~---~~~~tiitSNl~  205 (244)
T PRK07952        184 I---NQIVDRRSS---SKRPTGMLTNSN  205 (244)
T ss_pred             H---HHHHHHHHh---CCCCEEEeCCCC
Confidence            3   334444322   346788999954

>PRK09087 hypothetical protein; Validated

Probab=99.27  E-value=1.2e-10  Score=111.78  Aligned_cols=164  Identities=14%  Similarity=0.181  Sum_probs=98.9

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL  277 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~  277 (455)
                      +...+..+|++++..+.-.. ....+..+.         + ...+.++||||+|+|||||++++++..+..++..  ..+
T Consensus        12 ~~~~~~~~~~~Fi~~~~N~~-a~~~l~~~~---------~-~~~~~l~l~G~~GsGKThLl~~~~~~~~~~~i~~--~~~   78 (226)
T PRK09087         12 FSHDPAYGRDDLLVTESNRA-AVSLVDHWP---------N-WPSPVVVLAGPVGSGKTHLASIWREKSDALLIHP--NEI   78 (226)
T ss_pred             CCCCCCCChhceeecCchHH-HHHHHHhcc---------c-CCCCeEEEECCCCCCHHHHHHHHHHhcCCEEecH--HHc
Confidence            34455568999885221111 222222211         1 1133599999999999999999999876654433  221


Q ss_pred             CChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcC-CCC---
Q 047029          278 RSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTN-YKE---  353 (455)
Q Consensus       278 ~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN-~~~---  353 (455)
                      . ..    .+... ...+|+|||++.+..              .+   .+|++.++.+...  + ..+|+|++ .|.   
T Consensus        79 ~-~~----~~~~~-~~~~l~iDDi~~~~~--------------~~---~~lf~l~n~~~~~--g-~~ilits~~~p~~~~  132 (226)
T PRK09087         79 G-SD----AANAA-AEGPVLIEDIDAGGF--------------DE---TGLFHLINSVRQA--G-TSLLMTSRLWPSSWN  132 (226)
T ss_pred             c-hH----HHHhh-hcCeEEEECCCCCCC--------------CH---HHHHHHHHHHHhC--C-CeEEEECCCChHHhc
Confidence            1 11    11111 125899999997521              12   2344444444332  2 34455444 443   


Q ss_pred             CCCccccCCCcee--EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          354 RLDPALLRPGRMD--MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       354 ~Ld~allRpGR~d--~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                      ...|+|+.  |+.  ..+++..|+.+.+.+++++.+...+..+.+++...+
T Consensus       133 ~~~~dL~S--Rl~~gl~~~l~~pd~e~~~~iL~~~~~~~~~~l~~ev~~~L  181 (226)
T PRK09087        133 VKLPDLKS--RLKAATVVEIGEPDDALLSQVIFKLFADRQLYVDPHVVYYL  181 (226)
T ss_pred             cccccHHH--HHhCCceeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            23688888  775  889999999999999999999876666666655554

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.27  E-value=1.6e-10  Score=123.05  Aligned_cols=172  Identities=19%  Similarity=0.230  Sum_probs=118.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHH---h--------------HHHH----hhhcCCCCceeEEECCCCCChHHHHH
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVK---R--------------REFY----SRVGKAWKRGYLLYGPPGTGKSSLIA  259 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~---~--------------~~~~----~~~g~~~~rg~LL~GPpGTGKTsla~  259 (455)
                      -.|+.|.+|.+++.+-+.++.+|+.|=.   +              ++.+    ...+.|.++-+||+||||-||||||+
T Consensus       265 y~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGlGKTTLAH  344 (877)
T KOG1969|consen  265 YRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGLGKTTLAH  344 (877)
T ss_pred             cChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCCChhHHHH
Confidence            4578899999999999999999985531   1              0111    22346667889999999999999999


Q ss_pred             HHHHHcCCcEEEEeccccCChHHHHHHHHhh----------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhh
Q 047029          260 AMANYLKFDIYDMELASLRSNSDLRRLLVST----------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLL  329 (455)
Q Consensus       260 alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~----------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL  329 (455)
                      .+|+..|+.+++++.++-.+...+.+.+..+          .+|..|+|||||-...                ..+..++
T Consensus       345 ViAkqaGYsVvEINASDeRt~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~~----------------~~Vdvil  408 (877)
T KOG1969|consen  345 VIAKQAGYSVVEINASDERTAPMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAPR----------------AAVDVIL  408 (877)
T ss_pred             HHHHhcCceEEEecccccccHHHHHHHHHHHHhhccccccCCCcceEEEecccCCcH----------------HHHHHHH
Confidence            9999999999999999988877777665332          4689999999995421                1112222


Q ss_pred             hhhh-------ccccc----------CCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          330 NFVD-------GLWSS----------CGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       330 ~~ld-------g~~~~----------~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      ..+.       |-...          ..=.+-||+.+|...  -|||+----+...|.|..|......+-++..+..+
T Consensus       409 slv~a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLY--aPaLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE  484 (877)
T KOG1969|consen  409 SLVKATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLY--APALRPLRPFAEIIAFVPPSQSRLVERLNEICHRE  484 (877)
T ss_pred             HHHHhhcchhhcCcccchhhhhhhccccccCCEEEEecCcc--chhhhhcccceEEEEecCCChhHHHHHHHHHHhhh
Confidence            2211       11000          001257999999754  37775222677899999998887666666555544

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.26  E-value=4.7e-11  Score=120.88  Aligned_cols=155  Identities=23%  Similarity=0.295  Sum_probs=104.8

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------cEE-----
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------DIY-----  270 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------~v~-----  270 (455)
                      ..+|..++|+++.|..|+..+..             +.-.|+||.||+|||||++++++++.+..       ++.     
T Consensus        13 ~~pf~~ivGq~~~k~al~~~~~~-------------p~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~~~p~~   79 (350)
T CHL00081         13 VFPFTAIVGQEEMKLALILNVID-------------PKIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFNSHPSD   79 (350)
T ss_pred             CCCHHHHhChHHHHHHHHHhccC-------------CCCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCCCCCCC
Confidence            45799999999999998776642             12358999999999999999999888731       111     


Q ss_pred             -----------------------EEecccc---CChH------HHHHHHHh-----------hCCceEEEEecccchhhh
Q 047029          271 -----------------------DMELASL---RSNS------DLRRLLVS-----------TGNRSILVIEDIDCSIEL  307 (455)
Q Consensus       271 -----------------------~l~~~~~---~~~~------~l~~ll~~-----------~~~~~IL~iDEiD~l~~~  307 (455)
                                             .+.+..+   .+.+      ++.+.|..           ..+..+|++|||+.+.+ 
T Consensus        80 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL~~-  158 (350)
T CHL00081         80 PELMSDEVREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDD-  158 (350)
T ss_pred             hhhhchhhhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhCCH-
Confidence                                   0000000   0111      12222211           12458999999998743 


Q ss_pred             hhhcCCCCCCCCcchhhHhhhhhhhhc---------ccccCCCceEEEEEcCCCC-CCCccccCCCceeEEEEeCCCC-H
Q 047029          308 ENRQCGGGYDENNSQVTLSGLLNFVDG---------LWSSCGDERIIVFTTNYKE-RLDPALLRPGRMDMHIHMSYLT-P  376 (455)
Q Consensus       308 ~~~~~~~~~~~~~~~~~ls~LL~~ldg---------~~~~~~~~~ivI~TTN~~~-~Ld~allRpGR~d~~I~~~~p~-~  376 (455)
                                     .+.+.|++.|+.         .....+...++|+|.|..+ .+.++|+.  ||.++|.+++|+ .
T Consensus       159 ---------------~~Q~~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~Lld--Rf~l~i~l~~~~~~  221 (350)
T CHL00081        159 ---------------HLVDILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGMHAEIRTVKDP  221 (350)
T ss_pred             ---------------HHHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHH--HhCceeecCCCCCh
Confidence                           455667777743         2222234566777777655 69999999  999999999998 5


Q ss_pred             HHHHHHHHHhhc
Q 047029          377 GGFKILAFNYLK  388 (455)
Q Consensus       377 ~~~~~L~~~~l~  388 (455)
                      +.+.+|+++...
T Consensus       222 ~~e~~il~~~~~  233 (350)
T CHL00081        222 ELRVKIVEQRTS  233 (350)
T ss_pred             HHHHHHHHhhhc
Confidence            888898887644

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.24  E-value=4.9e-11  Score=120.60  Aligned_cols=153  Identities=22%  Similarity=0.293  Sum_probs=102.8

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC-------CcEE-------
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK-------FDIY-------  270 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~-------~~v~-------  270 (455)
                      .|..++|++++|..++-.+..             +...+++|.||||||||++++++++.+.       .++-       
T Consensus         2 pf~~ivgq~~~~~al~~~~~~-------------~~~g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~   68 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVID-------------PKIGGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPE   68 (337)
T ss_pred             CccccccHHHHHHHHHHHhcC-------------CCCCeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCcc
Confidence            588999999999887655432             1134799999999999999999998872       1111       


Q ss_pred             ------E------------------Eecc------ccCChHHHHHHHH-----------hhCCceEEEEecccchhhhhh
Q 047029          271 ------D------------------MELA------SLRSNSDLRRLLV-----------STGNRSILVIEDIDCSIELEN  309 (455)
Q Consensus       271 ------~------------------l~~~------~~~~~~~l~~ll~-----------~~~~~~IL~iDEiD~l~~~~~  309 (455)
                            .                  .++.      .+.+.-++.+.+.           ...++.+|+||||+.+.+   
T Consensus        69 ~~~~~~r~~~~~~~~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L~~---  145 (337)
T TIGR02030        69 MMCEEVRIRVDSQEPLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNLLED---  145 (337)
T ss_pred             ccChHHhhhhhcccccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHhCCH---
Confidence                  0                  0110      1112223333321           113458999999998743   


Q ss_pred             hcCCCCCCCCcchhhHhhhhhhhhc---------ccccCCCceEEEEEcCCCC-CCCccccCCCceeEEEEeCCCCH-HH
Q 047029          310 RQCGGGYDENNSQVTLSGLLNFVDG---------LWSSCGDERIIVFTTNYKE-RLDPALLRPGRMDMHIHMSYLTP-GG  378 (455)
Q Consensus       310 ~~~~~~~~~~~~~~~ls~LL~~ldg---------~~~~~~~~~ivI~TTN~~~-~Ld~allRpGR~d~~I~~~~p~~-~~  378 (455)
                                   .+.+.|++.|+.         .....+...++|+|+|..+ .+.++|+.  ||.+++.+++|.. ++
T Consensus       146 -------------~~Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~eg~l~~~Lld--Rf~l~i~l~~p~~~ee  210 (337)
T TIGR02030       146 -------------HLVDVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGLHAEIRTVRDVEL  210 (337)
T ss_pred             -------------HHHHHHHHHHHhCCeEEEECCEEEEcCCCEEEEeccccccCCCCHHHHh--hcceEEECCCCCCHHH
Confidence                         455667777742         2222334567777888655 68999999  9999999999986 78


Q ss_pred             HHHHHHHhhc
Q 047029          379 FKILAFNYLK  388 (455)
Q Consensus       379 ~~~L~~~~l~  388 (455)
                      +.+++++...
T Consensus       211 r~eIL~~~~~  220 (337)
T TIGR02030       211 RVEIVERRTE  220 (337)
T ss_pred             HHHHHHhhhh
Confidence            8888887544

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.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.24  E-value=8.7e-11  Score=120.47  Aligned_cols=69  Identities=17%  Similarity=0.238  Sum_probs=50.6

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcC-CCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGK-AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS  276 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~-~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~  276 (455)
                      .++|+++.|+.+...+..-.++...-..... ..++++||+||||||||++|+++|+.++.+++.++.+.
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~   85 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATK   85 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchh
Confidence            4789999999998777543222211111111 12579999999999999999999999999999998754

>PRK08116 hypothetical protein; Validated

Probab=99.23  E-value=7.4e-11  Score=116.01  Aligned_cols=149  Identities=21%  Similarity=0.326  Sum_probs=91.8

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCC-
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRS-  279 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~-  279 (455)
                      .+|++....+.. +.....+..+...   |.... ..++|++||||||||||+|+.|+|+++   +.+++.++...+.. 
T Consensus        82 ~tFdnf~~~~~~-~~a~~~a~~y~~~---~~~~~-~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~  156 (268)
T PRK08116         82 STFENFLFDKGS-EKAYKIARKYVKK---FEEMK-KENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNR  156 (268)
T ss_pred             cchhcccCChHH-HHHHHHHHHHHHH---HHhhc-cCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHH
Confidence            467777654443 2234444444432   11111 224689999999999999999999987   67888877655311 


Q ss_pred             ---------hHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcC
Q 047029          280 ---------NSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTN  350 (455)
Q Consensus       280 ---------~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN  350 (455)
                               ......++....+..+|+|||++...              ........|.+.+|....   .+..+|+|||
T Consensus       157 i~~~~~~~~~~~~~~~~~~l~~~dlLviDDlg~e~--------------~t~~~~~~l~~iin~r~~---~~~~~IiTsN  219 (268)
T PRK08116        157 IKSTYKSSGKEDENEIIRSLVNADLLILDDLGAER--------------DTEWAREKVYNIIDSRYR---KGLPTIVTTN  219 (268)
T ss_pred             HHHHHhccccccHHHHHHHhcCCCEEEEecccCCC--------------CCHHHHHHHHHHHHHHHH---CCCCEEEECC
Confidence                     11223445555667899999997421              112344566777776543   2356888999


Q ss_pred             CC-CC----CCccccCCCce---eEEEEeCCCCH
Q 047029          351 YK-ER----LDPALLRPGRM---DMHIHMSYLTP  376 (455)
Q Consensus       351 ~~-~~----Ld~allRpGR~---d~~I~~~~p~~  376 (455)
                      .+ +.    ++.++..  |+   ...|.+.-++.
T Consensus       220 ~~~~eL~~~~~~ri~s--Rl~e~~~~v~~~g~d~  251 (268)
T PRK08116        220 LSLEELKNQYGKRIYD--RILEMCTPVENEGKSY  251 (268)
T ss_pred             CCHHHHHHHHhHHHHH--HHHHcCEEEEeeCcCh
Confidence            64 22    5667776  63   45567766664

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.23  E-value=1.2e-10  Score=119.34  Aligned_cols=69  Identities=16%  Similarity=0.261  Sum_probs=51.0

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhc-CCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVG-KAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS  276 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g-~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~  276 (455)
                      .++|+++.|+.+.-.+..-.++...-..++ -..|+++||+||||||||++++++|+.++.+++.++.+.
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~   82 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATK   82 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecce
Confidence            478889999988777664333322111111 223589999999999999999999999999999998653

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.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.22  E-value=1.9e-10  Score=106.94  Aligned_cols=124  Identities=23%  Similarity=0.315  Sum_probs=90.3

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCC------------------------cEEEEecccc-CChHHHHHHHHhh----
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKF------------------------DIYDMELASL-RSNSDLRRLLVST----  290 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~------------------------~v~~l~~~~~-~~~~~l~~ll~~~----  290 (455)
                      .+..||||||||+|||++++++|+.+..                        ++..+..... .+-..++.++...    
T Consensus        13 ~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i~~i~~~~~~~~   92 (188)
T TIGR00678        13 LAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQVRELVEFLSRTP   92 (188)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHHHHHHHHHccCc
Confidence            3568999999999999999999999743                        2333332211 2234565555433    


Q ss_pred             --CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEE
Q 047029          291 --GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMH  368 (455)
Q Consensus       291 --~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~  368 (455)
                        ..+.|++|||+|.+..                ...+.||..|+..    +...++|++||.+..+.+++.+  |+ ..
T Consensus        93 ~~~~~kviiide~~~l~~----------------~~~~~Ll~~le~~----~~~~~~il~~~~~~~l~~~i~s--r~-~~  149 (188)
T TIGR00678        93 QESGRRVVIIEDAERMNE----------------AAANALLKTLEEP----PPNTLFILITPSPEKLLPTIRS--RC-QV  149 (188)
T ss_pred             ccCCeEEEEEechhhhCH----------------HHHHHHHHHhcCC----CCCeEEEEEECChHhChHHHHh--hc-EE
Confidence              2467999999998732                3456688888763    2457788888888999999998  77 48


Q ss_pred             EEeCCCCHHHHHHHHHHh
Q 047029          369 IHMSYLTPGGFKILAFNY  386 (455)
Q Consensus       369 I~~~~p~~~~~~~L~~~~  386 (455)
                      +++..|+.++...++...
T Consensus       150 ~~~~~~~~~~~~~~l~~~  167 (188)
T TIGR00678       150 LPFPPLSEEALLQWLIRQ  167 (188)
T ss_pred             eeCCCCCHHHHHHHHHHc
Confidence            999999999988877765

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.20  E-value=3.8e-10  Score=127.24  Aligned_cols=158  Identities=17%  Similarity=0.299  Sum_probs=109.7

Q ss_pred             CcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCC---C-ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC
Q 047029          206 FDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAW---K-RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR  278 (455)
Q Consensus       206 fd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~---~-rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~  278 (455)
                      ++.++|++...+.|.+.+.....        |...   | ..+||+||||||||++|+++|+.+   +..++.++++.+.
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~--------gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~  638 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRA--------GLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFM  638 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHh--------cccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhh
Confidence            55788998888888887764321        2211   2 258999999999999999999988   4568888887653


Q ss_pred             ChHHHHHHH---------------H---hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc-cc-c
Q 047029          279 SNSDLRRLL---------------V---STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL-WS-S  338 (455)
Q Consensus       279 ~~~~l~~ll---------------~---~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~-~~-~  338 (455)
                      ......+++               .   .....+||+||||+.+-+                ...+.|++.+|.- .. .
T Consensus       639 ~~~~~~~LiG~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~----------------~v~~~Ll~ile~g~l~d~  702 (857)
T PRK10865        639 EKHSVSRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHP----------------DVFNILLQVLDDGRLTDG  702 (857)
T ss_pred             hhhhHHHHhCCCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCH----------------HHHHHHHHHHhhCceecC
Confidence            322222222               1   112348999999997632                3566777777532 11 1


Q ss_pred             C-----CCceEEEEEcCCC-------------------------CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          339 C-----GDERIIVFTTNYK-------------------------ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       339 ~-----~~~~ivI~TTN~~-------------------------~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      .     -.+.+||+|||..                         ..+.|+|+.  |+|..+.|.+++.+....|++.++.
T Consensus       703 ~gr~vd~rn~iiI~TSN~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PELln--Rld~iivF~PL~~edl~~Iv~~~L~  780 (857)
T PRK10865        703 QGRTVDFRNTVVIMTSNLGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFIN--RIDEVVVFHPLGEQHIASIAQIQLQ  780 (857)
T ss_pred             CceEEeecccEEEEeCCcchHHHHHhccccchHHHHHHHHHHHcccccHHHHH--hCCeeEecCCCCHHHHHHHHHHHHH
Confidence            0     1346899999962                         124567787  9999999999999999999998885


Q ss_pred             c
Q 047029          389 I  389 (455)
Q Consensus       389 ~  389 (455)
                      .
T Consensus       781 ~  781 (857)
T PRK10865        781 R  781 (857)
T ss_pred             H
Confidence            4

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

Probab=99.19  E-value=2.4e-10  Score=118.33  Aligned_cols=135  Identities=16%  Similarity=0.285  Sum_probs=80.4

Q ss_pred             CcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc-----EEEEeccc----
Q 047029          206 FDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD-----IYDMELAS----  276 (455)
Q Consensus       206 fd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~-----v~~l~~~~----  276 (455)
                      ++++.+.++..+.+...+.               .+++++|+||||||||++|+++|+.+...     +..+..+.    
T Consensus       174 l~d~~i~e~~le~l~~~L~---------------~~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySY  238 (459)
T PRK11331        174 LNDLFIPETTIETILKRLT---------------IKKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSY  238 (459)
T ss_pred             hhcccCCHHHHHHHHHHHh---------------cCCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccH
Confidence            4455555555555544433               16799999999999999999999988431     11111111    


Q ss_pred             --c------C------ChHHHHHHHHhh----CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhh-----
Q 047029          277 --L------R------SNSDLRRLLVST----GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVD-----  333 (455)
Q Consensus       277 --~------~------~~~~l~~ll~~~----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ld-----  333 (455)
                        +      .      ....+.+++..+    ..+.|||||||+..-.               ...+..++..|+     
T Consensus       239 eDFI~G~rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani---------------~kiFGel~~lLE~~~rg  303 (459)
T PRK11331        239 EDFIQGYRPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANL---------------SKVFGEVMMLMEHDKRG  303 (459)
T ss_pred             HHHhcccCCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCH---------------HHhhhhhhhhccccccc
Confidence              0      0      011223333232    3579999999997521               011111222121     


Q ss_pred             -------------cccccCCCceEEEEEcCCCC----CCCccccCCCceeEEEEeCC
Q 047029          334 -------------GLWSSCGDERIIVFTTNYKE----RLDPALLRPGRMDMHIHMSY  373 (455)
Q Consensus       334 -------------g~~~~~~~~~ivI~TTN~~~----~Ld~allRpGR~d~~I~~~~  373 (455)
                                   +-.-..+.++.||+|+|..|    .+|.||+|  ||.+ |++.+
T Consensus       304 ~~~~v~l~y~e~d~e~f~iP~Nl~IIgTMNt~Drs~~~lD~AlrR--RF~f-i~i~p  357 (459)
T PRK11331        304 ENWSVPLTYSENDEERFYVPENVYIIGLMNTADRSLAVVDYALRR--RFSF-IDIEP  357 (459)
T ss_pred             cccceeeeccccccccccCCCCeEEEEecCccccchhhccHHHHh--hhhe-EEecC
Confidence                         10112357799999999887    79999999  9954 66654

>PRK06526 transposase; Provisional

Probab=99.19  E-value=3.9e-11  Score=116.96  Aligned_cols=153  Identities=20%  Similarity=0.293  Sum_probs=90.4

Q ss_pred             HHhhhhHHHHHHHHHHhccceEEEeecCcccccccCCCCCCcccccC--HHHHHHHHHHHH--HHHHhHHHHhhhcCCCC
Q 047029          166 LNKYLPYVAERSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMD--PVLKQALIDDLD--RFVKRREFYSRVGKAWK  241 (455)
Q Consensus       166 l~~yl~~v~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~tfd~l~g~--~~~k~~l~~~l~--~~l~~~~~~~~~g~~~~  241 (455)
                      ..+||..+++.+.+.++.++..+.     .+...|+.+.+|+++...  +.+.+..+..+.  .|+..           +
T Consensus        35 ~~e~l~~ll~~E~~~R~~~~~~~~-----lk~a~~p~~~~le~fd~~~~~~~~~~~~~~l~~~~fi~~-----------~   98 (254)
T PRK06526         35 HEEFLAACLQREVAARESHGGEGR-----IRAARFPARKSLEEFDFDHQRSLKRDTIAHLGTLDFVTG-----------K   98 (254)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-----HHhCCCCCCCChhhccCccCCCcchHHHHHHhcCchhhc-----------C
Confidence            345777777777776666554322     223345556666655432  233333333322  23322           5


Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC-------ChHHHHHHHHhhCCceEEEEecccchhhhhhhc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR-------SNSDLRRLLVSTGNRSILVIEDIDCSIELENRQ  311 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~-------~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~  311 (455)
                      .+++|+||||||||+|+.+++.++   |..++......+.       ....+.+.+....+..+|+|||++....     
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~l~~~dlLIIDD~g~~~~-----  173 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAGRLQAELVKLGRYPLLIVDEVGYIPF-----  173 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHHhccCCEEEEcccccCCC-----
Confidence            689999999999999999999986   6666655544321       1223444555566788999999997531     


Q ss_pred             CCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          312 CGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       312 ~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                               .......|.+.++.....    ..+|+|||.+
T Consensus       174 ---------~~~~~~~L~~li~~r~~~----~s~IitSn~~  201 (254)
T PRK06526        174 ---------EPEAANLFFQLVSSRYER----ASLIVTSNKP  201 (254)
T ss_pred             ---------CHHHHHHHHHHHHHHHhc----CCEEEEcCCC
Confidence                     112223344555443322    2478899965

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=99.19  E-value=8.1e-11  Score=125.55  Aligned_cols=153  Identities=30%  Similarity=0.438  Sum_probs=120.1

Q ss_pred             HHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc------CChHHHHHHHHhhC--CceEEEE
Q 047029          227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL------RSNSDLRRLLVSTG--NRSILVI  298 (455)
Q Consensus       227 l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~------~~~~~l~~ll~~~~--~~~IL~i  298 (455)
                      +..+..++..+..+++|++++||||||||++++++|+. +.....++....      .+...++.++....  .++++++
T Consensus         4 ~~~~~~~~~~~~~~~~~v~~~g~~~~~~t~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ii~~   82 (494)
T COG0464           4 LKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGESELRLRELFEEAEKLAPSIIFI   82 (494)
T ss_pred             ccCHHHHHHhCCCCCCCceeeCCCCCchhHHHHHHHhc-cCcccccCcchhhhhhhhHHHHHHHHHHHHHHHhCCCeEee
Confidence            34567788899999999999999999999999999999 544444444332      23456666665543  5799999


Q ss_pred             ecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHH
Q 047029          299 EDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGG  378 (455)
Q Consensus       299 DEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~  378 (455)
                      ||+|.+.+.+..     ..........+.++..+|++.  .+. ++++..||.+..+|+++.+||||+..+.+..|+...
T Consensus        83 d~~~~~~~~~~~-----~~~~~~~~v~~~l~~~~d~~~--~~~-v~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (494)
T COG0464          83 DEIDALAPKRSS-----DQGEVERRVVAQLLALMDGLK--RGQ-VIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDEAG  154 (494)
T ss_pred             chhhhcccCccc-----cccchhhHHHHHHHHhccccc--CCc-eEEEeecCCccccChhHhCccccceeeecCCCCHHH
Confidence            999998763322     223345677899999999997  445 888889999999999999999999999999999999


Q ss_pred             HHHHHHHhhc
Q 047029          379 FKILAFNYLK  388 (455)
Q Consensus       379 ~~~L~~~~l~  388 (455)
                      +.++......
T Consensus       155 ~~ei~~~~~~  164 (494)
T COG0464         155 RLEILQIHTR  164 (494)
T ss_pred             HHHHHHHHHh
Confidence            8777776553

>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=99.18  E-value=1.9e-11  Score=105.66  Aligned_cols=106  Identities=27%  Similarity=0.297  Sum_probs=63.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHH--HHhh-------C---CceEEEEecccchhhhhhh
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRL--LVST-------G---NRSILVIEDIDCSIELENR  310 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~l--l~~~-------~---~~~IL~iDEiD~l~~~~~~  310 (455)
                      .+||+|+||+|||++|+++|+.++.++..+.++.-...+++.-.  +...       .   -..|+++|||....+    
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPif~~ill~DEiNrapp----   76 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPIFTNILLADEINRAPP----   76 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT-SSEEEEETGGGS-H----
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCCCeeEeecChhhhceeeecccccCCH----
Confidence            48999999999999999999999999999987642222222211  0000       0   136999999997643    


Q ss_pred             cCCCCCCCCcchhhHhhhhhhhh-------cccccCCCceEEEEEcCCCC-----CCCccccCCCcee
Q 047029          311 QCGGGYDENNSQVTLSGLLNFVD-------GLWSSCGDERIIVFTTNYKE-----RLDPALLRPGRMD  366 (455)
Q Consensus       311 ~~~~~~~~~~~~~~ls~LL~~ld-------g~~~~~~~~~ivI~TTN~~~-----~Ld~allRpGR~d  366 (455)
                                  .+.+.||+.|.       |..-..+...+||+|-|+.+     .|++|++.  ||-
T Consensus        77 ------------ktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~D--RF~  130 (131)
T PF07726_consen   77 ------------KTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLD--RFM  130 (131)
T ss_dssp             ------------HHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHT--TSS
T ss_pred             ------------HHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhc--ccc
Confidence                        67888998884       33344566788999999876     68899988  874

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.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=99.18  E-value=1.2e-10  Score=116.50  Aligned_cols=97  Identities=22%  Similarity=0.347  Sum_probs=69.8

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC-
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR-  278 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~-  278 (455)
                      ..+|+++...+.-+..+......|+..-   .. | +..+|++||||+|||||+|+.|+|+++   |..+..+....+. 
T Consensus       123 ~atf~~~~~~~~~~~~~~~~~~~fi~~~---~~-~-~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~  197 (306)
T PRK08939        123 QASLADIDLDDRDRLDALMAALDFLEAY---PP-G-EKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIR  197 (306)
T ss_pred             cCcHHHhcCCChHHHHHHHHHHHHHHHh---hc-c-CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHH
Confidence            4688888876655555555555666532   11 1 246799999999999999999999998   7777777765531 


Q ss_pred             ------ChHHHHHHHHhhCCceEEEEecccch
Q 047029          279 ------SNSDLRRLLVSTGNRSILVIEDIDCS  304 (455)
Q Consensus       279 ------~~~~l~~ll~~~~~~~IL~iDEiD~l  304 (455)
                            ....+.+.+....+..+|+|||++.-
T Consensus       198 ~lk~~~~~~~~~~~l~~l~~~dlLiIDDiG~e  229 (306)
T PRK08939        198 ELKNSISDGSVKEKIDAVKEAPVLMLDDIGAE  229 (306)
T ss_pred             HHHHHHhcCcHHHHHHHhcCCCEEEEecCCCc
Confidence                  12235566677778899999999863

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=99.16  E-value=8.9e-10  Score=112.75  Aligned_cols=192  Identities=18%  Similarity=0.216  Sum_probs=127.4

Q ss_pred             cccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-----cEEEEeccccCChHHH
Q 047029          209 LAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-----DIYDMELASLRSNSDL  283 (455)
Q Consensus       209 l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-----~v~~l~~~~~~~~~~l  283 (455)
                      +.+-++..+++...+..++.+..         |.++++|||||||||.+++.+++++.-     .+++++|....+...+
T Consensus        19 l~~Re~ei~~l~~~l~~~~~~~~---------p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i   89 (366)
T COG1474          19 LPHREEEINQLASFLAPALRGER---------PSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQV   89 (366)
T ss_pred             ccccHHHHHHHHHHHHHHhcCCC---------CccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHH
Confidence            77777888888887776665422         456999999999999999999999843     3788998776443221


Q ss_pred             -H------------------------HHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc
Q 047029          284 -R------------------------RLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS  338 (455)
Q Consensus       284 -~------------------------~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~  338 (455)
                       .                        +.+.......||++||+|.+..             .....+-.|+...+..   
T Consensus        90 ~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~-------------~~~~~LY~L~r~~~~~---  153 (366)
T COG1474          90 LSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVD-------------KDGEVLYSLLRAPGEN---  153 (366)
T ss_pred             HHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhcc-------------ccchHHHHHHhhcccc---
Confidence             1                        1222223457999999999864             1113333444333322   


Q ss_pred             CCCceEEEEEcCCC---CCCCccccCCCcee-EEEEeCCCCHHHHHHHHHHhhcc--cCCCchHHHHHhhccccCchhHH
Q 047029          339 CGDERIIVFTTNYK---ERLDPALLRPGRMD-MHIHMSYLTPGGFKILAFNYLKI--KSHSMFDEIEELIKEVEVTPAEE  412 (455)
Q Consensus       339 ~~~~~ivI~TTN~~---~~Ld~allRpGR~d-~~I~~~~p~~~~~~~L~~~~l~~--~~~~l~~ei~~ll~~~~~tpa~~  412 (455)
                       ...+.+|+.+|..   +.+||.+.+  ++. .+|.|++.+.+|...|+......  ....+.+++-+++....      
T Consensus       154 -~~~v~vi~i~n~~~~~~~ld~rv~s--~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~------  224 (366)
T COG1474         154 -KVKVSIIAVSNDDKFLDYLDPRVKS--SLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALV------  224 (366)
T ss_pred             -ceeEEEEEEeccHHHHHHhhhhhhh--ccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHH------
Confidence             2457888888854   678888886  332 45899999999999999988763  34555555555554211      


Q ss_pred             HhccCCHHHHHHHHHHHHHHhh
Q 047029          413 FMKSEDADVALNGLVDFLLRKK  434 (455)
Q Consensus       413 l~~~~~~~~al~~l~~~l~~~~  434 (455)
                      .-.+.|+..|++-+..+.+.+.
T Consensus       225 a~~~GDAR~aidilr~A~eiAe  246 (366)
T COG1474         225 AAESGDARKAIDILRRAGEIAE  246 (366)
T ss_pred             HHcCccHHHHHHHHHHHHHHHH
Confidence            1123377777777766665544

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.15  E-value=3.9e-10  Score=126.95  Aligned_cols=155  Identities=18%  Similarity=0.242  Sum_probs=107.5

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC---CCce-eEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCC
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKA---WKRG-YLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRS  279 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~---~~rg-~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~  279 (455)
                      +.|+|+++..+.|.+.+.....        |..   .|.| +||+||||||||.+|+++|..+   ...++.++++.+..
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~--------gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~  637 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARA--------GLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQE  637 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhc--------CCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhh
Confidence            4678888888888887764322        221   2444 8999999999999999999998   45678888776522


Q ss_pred             h-------------------HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc--cc
Q 047029          280 N-------------------SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW--SS  338 (455)
Q Consensus       280 ~-------------------~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~--~~  338 (455)
                      .                   ..+...+.. ...+||+|||||.+-+                ...+.|++.+|...  +.
T Consensus       638 ~~~~~~l~g~~~gyvg~~~~g~L~~~v~~-~p~svvllDEieka~~----------------~v~~~Llq~ld~g~l~d~  700 (852)
T TIGR03345       638 AHTVSRLKGSPPGYVGYGEGGVLTEAVRR-KPYSVVLLDEVEKAHP----------------DVLELFYQVFDKGVMEDG  700 (852)
T ss_pred             hhhhccccCCCCCcccccccchHHHHHHh-CCCcEEEEechhhcCH----------------HHHHHHHHHhhcceeecC
Confidence            1                   123333333 4569999999996522                34566777776332  11


Q ss_pred             C-----CCceEEEEEcCCCC-----------------------------CCCccccCCCceeEEEEeCCCCHHHHHHHHH
Q 047029          339 C-----GDERIIVFTTNYKE-----------------------------RLDPALLRPGRMDMHIHMSYLTPGGFKILAF  384 (455)
Q Consensus       339 ~-----~~~~ivI~TTN~~~-----------------------------~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~  384 (455)
                      .     -.+.+||+|||...                             .+.|+++.  |++ .|.|...+.++...|+.
T Consensus       701 ~Gr~vd~~n~iiI~TSNlg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEfln--Ri~-iI~F~pLs~e~l~~Iv~  777 (852)
T TIGR03345       701 EGREIDFKNTVILLTSNAGSDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLG--RMT-VIPYLPLDDDVLAAIVR  777 (852)
T ss_pred             CCcEEeccccEEEEeCCCchHHHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhc--cee-EEEeCCCCHHHHHHHHH
Confidence            1     14579999999421                             14566666  998 78999999999999998


Q ss_pred             Hhhcc
Q 047029          385 NYLKI  389 (455)
Q Consensus       385 ~~l~~  389 (455)
                      ..+..
T Consensus       778 ~~L~~  782 (852)
T TIGR03345       778 LKLDR  782 (852)
T ss_pred             HHHHH
Confidence            87753

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.15  E-value=5.1e-10  Score=126.49  Aligned_cols=155  Identities=17%  Similarity=0.274  Sum_probs=108.1

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC----CCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCC
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKA----WKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRS  279 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~----~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~  279 (455)
                      ..++|++...+.+.+.+.....        |..    +...+||+||||||||++|+++|..+   +.+++.++++....
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~--------gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~  636 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRA--------GLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYME  636 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhc--------cCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcc
Confidence            4678888888888887764321        221    23359999999999999999999988   46788888876533


Q ss_pred             hHHHH-------------------HHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-c-c
Q 047029          280 NSDLR-------------------RLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-S-S  338 (455)
Q Consensus       280 ~~~l~-------------------~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~-~  338 (455)
                      .....                   ..+. ....+||+||||+.+-+                ...+.|++.+|.-. . .
T Consensus       637 ~~~~~~l~g~~~g~~g~~~~g~l~~~v~-~~p~~vlllDeieka~~----------------~v~~~Ll~~l~~g~l~d~  699 (852)
T TIGR03346       637 KHSVARLIGAPPGYVGYEEGGQLTEAVR-RKPYSVVLFDEVEKAHP----------------DVFNVLLQVLDDGRLTDG  699 (852)
T ss_pred             cchHHHhcCCCCCccCcccccHHHHHHH-cCCCcEEEEeccccCCH----------------HHHHHHHHHHhcCceecC
Confidence            22222                   2221 23457999999997632                45667777775321 1 1


Q ss_pred             C-----CCceEEEEEcCCCC-------------------------CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          339 C-----GDERIIVFTTNYKE-------------------------RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       339 ~-----~~~~ivI~TTN~~~-------------------------~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      .     -.+.+||+|||...                         .+.|.|+.  |+|..|.|.+++.+....|+...+.
T Consensus       700 ~g~~vd~rn~iiI~TSn~g~~~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~~--Rid~IivF~PL~~e~l~~I~~l~L~  777 (852)
T TIGR03346       700 QGRTVDFRNTVIIMTSNLGSQFIQELAGGDDYEEMREAVMEVLRAHFRPEFLN--RIDEIVVFHPLGREQIARIVEIQLG  777 (852)
T ss_pred             CCeEEecCCcEEEEeCCcchHhHhhhcccccHHHHHHHHHHHHHhhcCHHHhc--CcCeEEecCCcCHHHHHHHHHHHHH
Confidence            1     14578999999621                         13355665  9999999999999999999888775

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.

>PRK12377 putative replication protein; Provisional

Probab=99.14  E-value=3.4e-10  Score=109.84  Aligned_cols=134  Identities=18%  Similarity=0.228  Sum_probs=83.6

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCC-
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRS-  279 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~-  279 (455)
                      .+|++.....+..+.++..+..+...-   ..    ...+++|+||||||||+|+.|+|+.+   +..+..+...++.. 
T Consensus        71 ~tFdnf~~~~~~~~~a~~~a~~~a~~~---~~----~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~  143 (248)
T PRK12377         71 CSFANYQVQNDGQRYALSQAKSIADEL---MT----GCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSR  143 (248)
T ss_pred             CCcCCcccCChhHHHHHHHHHHHHHHH---Hh----cCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHH
Confidence            478888654444444545444444321   11    14689999999999999999999998   67777776655421 


Q ss_pred             -------hHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          280 -------NSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       280 -------~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                             .....+++....+..+|+|||++....           ..   .....|.+.+|....   ...-+|+|||..
T Consensus       144 l~~~~~~~~~~~~~l~~l~~~dLLiIDDlg~~~~-----------s~---~~~~~l~~ii~~R~~---~~~ptiitSNl~  206 (248)
T PRK12377        144 LHESYDNGQSGEKFLQELCKVDLLVLDEIGIQRE-----------TK---NEQVVLNQIIDRRTA---SMRSVGMLTNLN  206 (248)
T ss_pred             HHHHHhccchHHHHHHHhcCCCEEEEcCCCCCCC-----------CH---HHHHHHHHHHHHHHh---cCCCEEEEcCCC
Confidence                   112345666677889999999986421           11   223345555555432   235688999954


Q ss_pred             -----CCCCccccC
Q 047029          353 -----ERLDPALLR  361 (455)
Q Consensus       353 -----~~Ld~allR  361 (455)
                           +.+..+++.
T Consensus       207 ~~~l~~~~~~ri~d  220 (248)
T PRK12377        207 HEAMSTLLGERVMD  220 (248)
T ss_pred             HHHHHHHhhHHHHH
Confidence                 234455555

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.13  E-value=3.6e-10  Score=117.97  Aligned_cols=128  Identities=16%  Similarity=0.177  Sum_probs=81.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC--cEEEEecc-----ccCChHHHHH-----HHHh-----hCCceEEEEecccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF--DIYDMELA-----SLRSNSDLRR-----LLVS-----TGNRSILVIEDIDC  303 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~--~v~~l~~~-----~~~~~~~l~~-----ll~~-----~~~~~IL~iDEiD~  303 (455)
                      ...+||+||||||||++|+++|...+.  ++..+.+.     ++.+...+..     .|..     .....+||+|||..
T Consensus        39 g~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~fttp~DLfG~l~i~~~~~~g~f~r~~~G~L~~A~lLfLDEI~r  118 (498)
T PRK13531         39 GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQALKDEGRYQRLTSGYLPEAEIVFLDEIWK  118 (498)
T ss_pred             CCCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeecCcHHhcCcHHHhhhhhcCchhhhcCCccccccEEeeccccc
Confidence            568999999999999999999998743  22222221     1111111111     1111     11234999999986


Q ss_pred             hhhhhhhcCCCCCCCCcchhhHhhhhhhhh-cccccC-----CCceEEEEEcCCCC---CCCccccCCCceeEEEEeCCC
Q 047029          304 SIELENRQCGGGYDENNSQVTLSGLLNFVD-GLWSSC-----GDERIIVFTTNYKE---RLDPALLRPGRMDMHIHMSYL  374 (455)
Q Consensus       304 l~~~~~~~~~~~~~~~~~~~~ls~LL~~ld-g~~~~~-----~~~~ivI~TTN~~~---~Ld~allRpGR~d~~I~~~~p  374 (455)
                      +.                ..+.+.||..|. +.....     -+.+++++|||...   ...+|+..  ||-++|.+++|
T Consensus       119 as----------------p~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN~LPE~g~~leAL~D--RFliri~vp~l  180 (498)
T PRK13531        119 AG----------------PAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNELPEADSSLEALYD--RMLIRLWLDKV  180 (498)
T ss_pred             CC----------------HHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCCCcccCCchHHhHh--hEEEEEECCCC
Confidence            53                367788898884 332221     12367788888432   23358999  99999999999


Q ss_pred             C-HHHHHHHHHHh
Q 047029          375 T-PGGFKILAFNY  386 (455)
Q Consensus       375 ~-~~~~~~L~~~~  386 (455)
                      + .+++..|+...
T Consensus       181 ~~~~~e~~lL~~~  193 (498)
T PRK13531        181 QDKANFRSMLTSQ  193 (498)
T ss_pred             CchHHHHHHHHcc
Confidence            7 56678888764

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.13  E-value=1.6e-09  Score=109.74  Aligned_cols=146  Identities=21%  Similarity=0.313  Sum_probs=104.2

Q ss_pred             CCccccc-CHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC----------------
Q 047029          205 TFDTLAM-DPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF----------------  267 (455)
Q Consensus       205 tfd~l~g-~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~----------------  267 (455)
                      .|++|.| ++.+++.+.+.+.            ....+..||||||+|+||+++|+++|+.+-.                
T Consensus         3 ~~~~i~~~q~~~~~~L~~~~~------------~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~   70 (329)
T PRK08058          3 TWEQLTALQPVVVKMLQNSIA------------KNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCK   70 (329)
T ss_pred             cHHHHHhhHHHHHHHHHHHHH------------cCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHH
Confidence            4778888 7777777766554            1233668999999999999999999998732                


Q ss_pred             --------cEEEEecccc-CChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhh
Q 047029          268 --------DIYDMELASL-RSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFV  332 (455)
Q Consensus       268 --------~v~~l~~~~~-~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~l  332 (455)
                              ++..+....- .+-.+++.+....      ....|++|||+|.+-.                ...+.||..+
T Consensus        71 ~~~~~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~----------------~a~NaLLK~L  134 (329)
T PRK08058         71 RIDSGNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTA----------------SAANSLLKFL  134 (329)
T ss_pred             HHhcCCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCH----------------HHHHHHHHHh
Confidence                    2333322211 1234566555332      2457999999998732                3567788888


Q ss_pred             hcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHH
Q 047029          333 DGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFN  385 (455)
Q Consensus       333 dg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~  385 (455)
                      +.-    ++..++|++|+.+..|-|++++  |+ .++++..|+.++....+..
T Consensus       135 EEP----p~~~~~Il~t~~~~~ll~TIrS--Rc-~~i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        135 EEP----SGGTTAILLTENKHQILPTILS--RC-QVVEFRPLPPESLIQRLQE  180 (329)
T ss_pred             cCC----CCCceEEEEeCChHhCcHHHHh--hc-eeeeCCCCCHHHHHHHHHH
Confidence            763    3567888899999999999999  88 6799999999887666653

>smart00763 AAA_PrkA PrkA AAA domain

Probab=99.13  E-value=1e-09  Score=110.95  Aligned_cols=63  Identities=22%  Similarity=0.263  Sum_probs=50.6

Q ss_pred             CCc-ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------cEEEEec
Q 047029          205 TFD-TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------DIYDMEL  274 (455)
Q Consensus       205 tfd-~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------~v~~l~~  274 (455)
                      -|+ ++.|.++.++++++.+.....+       +...++.++|.|||||||||+|+++|+.++.       ++|.+..
T Consensus        48 ~F~~~~~G~~~~i~~lv~~l~~~a~g-------~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       48 FFDHDFFGMEEAIERFVNYFKSAAQG-------LEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             ccchhccCcHHHHHHHHHHHHHHHhc-------CCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            466 8999999999998877654421       1233678999999999999999999999965       7887766

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.13  E-value=5.5e-10  Score=125.85  Aligned_cols=155  Identities=21%  Similarity=0.305  Sum_probs=106.2

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCC---C-ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCC
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAW---K-RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRS  279 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~---~-rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~  279 (455)
                      +.|+|+++..+.|.+.+....        .|...   | ..+||+||+|||||++|+++|+.+   +.+++.+++++...
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~--------~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~  580 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRAR--------VGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYME  580 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHh--------hcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccc
Confidence            467788888888877765322        22211   2 248999999999999999999998   46788888776522


Q ss_pred             hH-------------------HHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc--cc
Q 047029          280 NS-------------------DLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW--SS  338 (455)
Q Consensus       280 ~~-------------------~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~--~~  338 (455)
                      ..                   .+...+.. ...+||+|||||.+-+                ...+.|+..+|.-.  ..
T Consensus       581 ~~~~~~l~g~~~gyvg~~~~~~l~~~~~~-~p~~VvllDeieka~~----------------~v~~~Llq~le~g~~~d~  643 (821)
T CHL00095        581 KHTVSKLIGSPPGYVGYNEGGQLTEAVRK-KPYTVVLFDEIEKAHP----------------DIFNLLLQILDDGRLTDS  643 (821)
T ss_pred             cccHHHhcCCCCcccCcCccchHHHHHHh-CCCeEEEECChhhCCH----------------HHHHHHHHHhccCceecC
Confidence            11                   23222222 2348999999997632                45677788877421  11


Q ss_pred             C-----CCceEEEEEcCCCCC-------------------------------------CCccccCCCceeEEEEeCCCCH
Q 047029          339 C-----GDERIIVFTTNYKER-------------------------------------LDPALLRPGRMDMHIHMSYLTP  376 (455)
Q Consensus       339 ~-----~~~~ivI~TTN~~~~-------------------------------------Ld~allRpGR~d~~I~~~~p~~  376 (455)
                      .     -.+.+||+|||....                                     +.|.++.  |+|..|.|.+.+.
T Consensus       644 ~g~~v~~~~~i~I~Tsn~g~~~i~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~pefln--Rid~ii~F~pL~~  721 (821)
T CHL00095        644 KGRTIDFKNTLIIMTSNLGSKVIETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRPEFLN--RLDEIIVFRQLTK  721 (821)
T ss_pred             CCcEEecCceEEEEeCCcchHHHHhhccccCCcccccccccccHHHHHHHHHHHHHHhcCHHHhc--cCCeEEEeCCCCH
Confidence            1     146799999994311                                     1244555  9999999999999


Q ss_pred             HHHHHHHHHhhc
Q 047029          377 GGFKILAFNYLK  388 (455)
Q Consensus       377 ~~~~~L~~~~l~  388 (455)
                      ++..+|+...+.
T Consensus       722 ~~l~~Iv~~~l~  733 (821)
T CHL00095        722 NDVWEIAEIMLK  733 (821)
T ss_pred             HHHHHHHHHHHH
Confidence            999999988775

>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=99.12  E-value=1.5e-10  Score=106.25  Aligned_cols=109  Identities=24%  Similarity=0.423  Sum_probs=75.6

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCC----cEEEEeccccCC----hHHHHHHHHhhC------CceEEEEecccchh
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKF----DIYDMELASLRS----NSDLRRLLVSTG------NRSILVIEDIDCSI  305 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~----~v~~l~~~~~~~----~~~l~~ll~~~~------~~~IL~iDEiD~l~  305 (455)
                      |...+||.||+|||||.+|+++|+.+..    +++.+|++.+..    ...+.+++....      ...||+|||||.+.
T Consensus         2 p~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~~~~~gVVllDEidKa~   81 (171)
T PF07724_consen    2 PKSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVGAEEGGVVLLDEIDKAH   81 (171)
T ss_dssp             -SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHHHHHHTEEEEETGGGCS
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccchHHhhhhhhhhcccceeeccchhhhhhHHHhhcc
Confidence            3457999999999999999999999996    999999999876    455555554332      24699999999875


Q ss_pred             hhhhhcCCCCCCCCcchhhHhhhhhhhhccccc--CC-----CceEEEEEcCCCC
Q 047029          306 ELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS--CG-----DERIIVFTTNYKE  353 (455)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~--~~-----~~~ivI~TTN~~~  353 (455)
                      +.     .+...+......++.||..||+-.-.  .+     .+.++|+|+|.-.
T Consensus        82 ~~-----~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~~  131 (171)
T PF07724_consen   82 PS-----NSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFGA  131 (171)
T ss_dssp             HT-----TTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSST
T ss_pred             cc-----ccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEeccccc
Confidence            41     11111222335567788888743211  11     4579999999643

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 ....

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.10  E-value=3.1e-09  Score=106.83  Aligned_cols=148  Identities=20%  Similarity=0.255  Sum_probs=107.1

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-----------------
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-----------------  267 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-----------------  267 (455)
                      .|++|+|++.+++.+.+.+..            ...+..|||+||+|+||+++|.++|+.+-.                 
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~------------~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~h   69 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQ------------NRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNH   69 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHh------------CCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCC
Confidence            488999999999988887752            122569999999999999999999998732                 


Q ss_pred             -cEEEEecccc-----------------------CChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCC
Q 047029          268 -DIYDMELASL-----------------------RSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYD  317 (455)
Q Consensus       268 -~v~~l~~~~~-----------------------~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~  317 (455)
                       +++.+.....                       -.-..++++....      ....|++||++|.+-.           
T Consensus        70 PDl~~i~p~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~-----------  138 (314)
T PRK07399         70 PDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNE-----------  138 (314)
T ss_pred             CCEEEEeccccccccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCH-----------
Confidence             2232222100                       0012445554332      2468999999998732           


Q ss_pred             CCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          318 ENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       318 ~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                           ...+.||..|+.-    + +.++|++|+.++.|-|.+++  |+ ..++|+.++.++..+.+.....
T Consensus       139 -----~aaNaLLK~LEEP----p-~~~fILi~~~~~~Ll~TI~S--Rc-q~i~f~~l~~~~~~~~L~~~~~  196 (314)
T PRK07399        139 -----AAANALLKTLEEP----G-NGTLILIAPSPESLLPTIVS--RC-QIIPFYRLSDEQLEQVLKRLGD  196 (314)
T ss_pred             -----HHHHHHHHHHhCC----C-CCeEEEEECChHhCcHHHHh--hc-eEEecCCCCHHHHHHHHHHhhc
Confidence                 3456788887753    2 45778888899999999999  88 6899999999998888886643

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.10  E-value=3.8e-09  Score=106.73  Aligned_cols=123  Identities=20%  Similarity=0.292  Sum_probs=92.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC------------------------cEEEEeccc---cCChHHHHHHHHhh---
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF------------------------DIYDMELAS---LRSNSDLRRLLVST---  290 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~------------------------~v~~l~~~~---~~~~~~l~~ll~~~---  290 (455)
                      +..|||+||+|+||+++|.++|+.+.+                        +++.+....   ..+-.+++++....   
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~~~~  101 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFVVQT  101 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHHhhc
Confidence            568999999999999999999999843                        455554321   12345667665433   


Q ss_pred             ---CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeE
Q 047029          291 ---GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDM  367 (455)
Q Consensus       291 ---~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~  367 (455)
                         ....|++||++|.+-.                ...+.||..++.-    +++.++|++|+.++.|.|.+++  |+. 
T Consensus       102 ~~~~~~kv~iI~~a~~m~~----------------~aaNaLLK~LEEP----p~~~~fiL~t~~~~~ll~TI~S--Rc~-  158 (328)
T PRK05707        102 AQLGGRKVVLIEPAEAMNR----------------NAANALLKSLEEP----SGDTVLLLISHQPSRLLPTIKS--RCQ-  158 (328)
T ss_pred             cccCCCeEEEECChhhCCH----------------HHHHHHHHHHhCC----CCCeEEEEEECChhhCcHHHHh--hce-
Confidence               2457999999998732                4567788887763    3568899999999999999999  984 


Q ss_pred             EEEeCCCCHHHHHHHHHHh
Q 047029          368 HIHMSYLTPGGFKILAFNY  386 (455)
Q Consensus       368 ~I~~~~p~~~~~~~L~~~~  386 (455)
                      .+.|+.|+.++....+...
T Consensus       159 ~~~~~~~~~~~~~~~L~~~  177 (328)
T PRK05707        159 QQACPLPSNEESLQWLQQA  177 (328)
T ss_pred             eeeCCCcCHHHHHHHHHHh
Confidence            5999999998877666554

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=99.09  E-value=3.5e-10  Score=105.97  Aligned_cols=140  Identities=22%  Similarity=0.314  Sum_probs=66.7

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-cEE-EEecccc-----
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-DIY-DMELASL-----  277 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-~v~-~l~~~~~-----  277 (455)
                      .|.+|.|++..|+.+.-...            |   ..++||+||||||||++|++++..|.- ..- .++.+.+     
T Consensus         1 Df~dI~GQe~aKrAL~iAAa------------G---~h~lLl~GppGtGKTmlA~~l~~lLP~l~~~e~le~~~i~s~~~   65 (206)
T PF01078_consen    1 DFSDIVGQEEAKRALEIAAA------------G---GHHLLLIGPPGTGKTMLARRLPSLLPPLTEEEALEVSKIYSVAG   65 (206)
T ss_dssp             -TCCSSSTHHHHHHHHHHHH------------C---C--EEEES-CCCTHHHHHHHHHHCS--CCEECCESS--S-TT--
T ss_pred             ChhhhcCcHHHHHHHHHHHc------------C---CCCeEEECCCCCCHHHHHHHHHHhCCCCchHHHhhhcccccccc
Confidence            48899999999998865543            2   469999999999999999999987721 000 0011111     


Q ss_pred             ----------------CChHHHHHHHHh----------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          278 ----------------RSNSDLRRLLVS----------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       278 ----------------~~~~~l~~ll~~----------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                      ........++..          ...+.|||+||+-.+-                ..++..|+..
T Consensus        66 ~~~~~~~~~~~Pfr~phhs~s~~~liGgg~~~~PGeislAh~GVLflDE~~ef~----------------~~vld~Lr~p  129 (206)
T PF01078_consen   66 LGPDEGLIRQRPFRAPHHSASEAALIGGGRPPRPGEISLAHRGVLFLDELNEFD----------------RSVLDALRQP  129 (206)
T ss_dssp             -S---EEEE---EEEE-TT--HHHHHEEGGGEEE-CGGGGTTSEEEECETTTS-----------------HHHHHHHHHH
T ss_pred             CCCCCceecCCCcccCCCCcCHHHHhCCCcCCCcCHHHHhcCCEEEechhhhcC----------------HHHHHHHHHH
Confidence                            111222333311          1346899999997552                4667777777


Q ss_pred             hhcc---------cccCCCceEEEEEcCCC-----------------------CCCCccccCCCceeEEEEeCCCCHH
Q 047029          332 VDGL---------WSSCGDERIIVFTTNYK-----------------------ERLDPALLRPGRMDMHIHMSYLTPG  377 (455)
Q Consensus       332 ldg~---------~~~~~~~~ivI~TTN~~-----------------------~~Ld~allRpGR~d~~I~~~~p~~~  377 (455)
                      ++.-         .-..+.+.++|+|+|.=                       .+|...|+.  |||++|.++..+.+
T Consensus       130 le~g~v~i~R~~~~~~~Pa~f~lv~a~NPcpCG~~~~~~~~C~Cs~~~~~~Y~~rlsgpllD--RiDi~v~~~~~~~~  205 (206)
T PF01078_consen  130 LEDGEVTISRAGGSVTYPARFLLVAAMNPCPCGYYGDPDNRCRCSPRQIRRYQSRLSGPLLD--RIDIHVEVPRVSYE  205 (206)
T ss_dssp             HHHSBEEEEETTEEEEEB--EEEEEEE-S-------------------------------------------------
T ss_pred             HHCCeEEEEECCceEEEecccEEEEEeccccccccccccccccccccccccccccccccccc--cccccccccccccC
Confidence            7522         11123446788888732                       356677777  88888888776654

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.08  E-value=1.3e-09  Score=119.22  Aligned_cols=157  Identities=22%  Similarity=0.327  Sum_probs=114.5

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCC----ceeEEECCCCCChHHHHHHHHHHcC---CcEEEEeccccCC
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWK----RGYLLYGPPGTGKSSLIAAMANYLK---FDIYDMELASLRS  279 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~----rg~LL~GPpGTGKTsla~alA~~l~---~~v~~l~~~~~~~  279 (455)
                      ..++|+++..+.+.+.+..        .+.|+..|    ..+||.||+|+|||-||+++|..+.   -.++.+|+++...
T Consensus       491 ~rViGQd~AV~avs~aIrr--------aRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~E  562 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRR--------ARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYME  562 (786)
T ss_pred             cceeChHHHHHHHHHHHHH--------HhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHH
Confidence            4678888888888777763        23344322    2578899999999999999999995   7899999998865


Q ss_pred             hHHHHHHHHhh------------------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc--cccC
Q 047029          280 NSDLRRLLVST------------------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL--WSSC  339 (455)
Q Consensus       280 ~~~l~~ll~~~------------------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~--~~~~  339 (455)
                      ...+.+++-.-                  ...|||+||||+..-                ...++-||+.||.-  .+..
T Consensus       563 kHsVSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAH----------------pdV~nilLQVlDdGrLTD~~  626 (786)
T COG0542         563 KHSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAH----------------PDVFNLLLQVLDDGRLTDGQ  626 (786)
T ss_pred             HHHHHHHhCCCCCCceeccccchhHhhhcCCCeEEEechhhhcC----------------HHHHHHHHHHhcCCeeecCC
Confidence            55555554221                  124899999999753                25678899999732  2222


Q ss_pred             C-----CceEEEEEcCCC----------------------------CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHh
Q 047029          340 G-----DERIIVFTTNYK----------------------------ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNY  386 (455)
Q Consensus       340 ~-----~~~ivI~TTN~~----------------------------~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~  386 (455)
                      |     .+.+||||||--                            ....|+++.  |+|-.|.|.+.+.+...+|+...
T Consensus       627 Gr~VdFrNtiIImTSN~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLN--Rid~II~F~~L~~~~l~~Iv~~~  704 (786)
T COG0542         627 GRTVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLN--RIDEIIPFNPLSKEVLERIVDLQ  704 (786)
T ss_pred             CCEEecceeEEEEecccchHHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHh--hcccEEeccCCCHHHHHHHHHHH
Confidence            2     346899999932                            013455566  99999999999999999999988


Q ss_pred             hcc
Q 047029          387 LKI  389 (455)
Q Consensus       387 l~~  389 (455)
                      +..
T Consensus       705 L~~  707 (786)
T COG0542         705 LNR  707 (786)
T ss_pred             HHH
Confidence            763

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=99.08  E-value=6e-10  Score=95.70  Aligned_cols=118  Identities=25%  Similarity=0.350  Sum_probs=71.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCc---EEEEeccccCC--------------------hHHHHHHHHhhC--CceE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFD---IYDMELASLRS--------------------NSDLRRLLVSTG--NRSI  295 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~---v~~l~~~~~~~--------------------~~~l~~ll~~~~--~~~I  295 (455)
                      ++.++|+||||||||++++++|+.+...   ++.++......                    .......+....  .+.|
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v   81 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDV   81 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCCE
Confidence            4689999999999999999999999765   77777664321                    223333333332  3599


Q ss_pred             EEEecccchhhhhhhcCCCCCCCCcchhhHhhh--hhhhhcccccCCCceEEEEEcCC-CCCCCccccCCCceeEEEEeC
Q 047029          296 LVIEDIDCSIELENRQCGGGYDENNSQVTLSGL--LNFVDGLWSSCGDERIIVFTTNY-KERLDPALLRPGRMDMHIHMS  372 (455)
Q Consensus       296 L~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~L--L~~ldg~~~~~~~~~ivI~TTN~-~~~Ld~allRpGR~d~~I~~~  372 (455)
                      |+|||++.+....            ........  .......  .......+|+++|. ....+..+.+  |++.++.+.
T Consensus        82 iiiDei~~~~~~~------------~~~~~~~~~~~~~~~~~--~~~~~~~~i~~~~~~~~~~~~~~~~--~~~~~~~~~  145 (148)
T smart00382       82 LILDEITSLLDAE------------QEALLLLLEELRLLLLL--KSEKNLTVILTTNDEKDLGPALLRR--RFDRRIVLL  145 (148)
T ss_pred             EEEECCcccCCHH------------HHHHHHhhhhhHHHHHH--HhcCCCEEEEEeCCCccCchhhhhh--ccceEEEec
Confidence            9999999875310            00000000  0000111  11245788888886 3334444445  888888876


Q ss_pred             CC
Q 047029          373 YL  374 (455)
Q Consensus       373 ~p  374 (455)
                      .+
T Consensus       146 ~~  147 (148)
T smart00382      146 LI  147 (148)
T ss_pred             CC
Confidence            54

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.

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=99.08  E-value=2.3e-09  Score=110.10  Aligned_cols=180  Identities=16%  Similarity=0.258  Sum_probs=110.0

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEE
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDM  272 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l  272 (455)
                      ..+.+..|||+++..+.-.... .....+...+      |. .-.-++||||+|.|||+|++|++++.     +..++++
T Consensus        78 ~~l~~~ytFdnFv~g~~N~~A~-aa~~~va~~~------g~-~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~  149 (408)
T COG0593          78 SGLNPKYTFDNFVVGPSNRLAY-AAAKAVAENP------GG-AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYL  149 (408)
T ss_pred             ccCCCCCchhheeeCCchHHHH-HHHHHHHhcc------CC-cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEec
Confidence            3456667999987654433222 1222222222      22 24569999999999999999999988     2345555


Q ss_pred             eccccCC-------hHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEE
Q 047029          273 ELASLRS-------NSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERII  345 (455)
Q Consensus       273 ~~~~~~~-------~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~iv  345 (455)
                      .......       +..+.+.=... +-.+++||||+.+..           .   ..+..++...+..+...  +..||
T Consensus       150 ~se~f~~~~v~a~~~~~~~~Fk~~y-~~dlllIDDiq~l~g-----------k---~~~qeefFh~FN~l~~~--~kqIv  212 (408)
T COG0593         150 TSEDFTNDFVKALRDNEMEKFKEKY-SLDLLLIDDIQFLAG-----------K---ERTQEEFFHTFNALLEN--GKQIV  212 (408)
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHhh-ccCeeeechHhHhcC-----------C---hhHHHHHHHHHHHHHhc--CCEEE
Confidence            4333210       01111111222 567999999998853           1   12234444444444433  33455


Q ss_pred             EEEcCCCCC---CCccccCCCcee--EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhcc
Q 047029          346 VFTTNYKER---LDPALLRPGRMD--MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKE  404 (455)
Q Consensus       346 I~TTN~~~~---Ld~allRpGR~d--~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~  404 (455)
                      +.+-..|..   ++|.|.+  ||.  ..+.+..|+.+.+..++.......+..+.+++...+..
T Consensus       213 ltsdr~P~~l~~~~~rL~S--R~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~~i~~ev~~~la~  274 (408)
T COG0593         213 LTSDRPPKELNGLEDRLRS--RLEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLAK  274 (408)
T ss_pred             EEcCCCchhhccccHHHHH--HHhceeEEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            444445654   4588888  765  67799999999999999998877777777777666544

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.07  E-value=3.1e-10  Score=124.24  Aligned_cols=152  Identities=22%  Similarity=0.246  Sum_probs=102.2

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-------------------
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-------------------  265 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-------------------  265 (455)
                      .|..|+|++.+|..+.-.+.    .+         .-.||||+||||||||++|+++++.+                   
T Consensus         2 pf~~ivGq~~~~~al~~~av----~~---------~~g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~   68 (633)
T TIGR02442         2 PFTAIVGQEDLKLALLLNAV----DP---------RIGGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPE   68 (633)
T ss_pred             CcchhcChHHHHHHHHHHhh----CC---------CCCeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCcc
Confidence            47899999988877654332    11         12479999999999999999999998                   


Q ss_pred             ----------------CCcEEEEecccc----CChHHHHHHHH-----------hhCCceEEEEecccchhhhhhhcCCC
Q 047029          266 ----------------KFDIYDMELASL----RSNSDLRRLLV-----------STGNRSILVIEDIDCSIELENRQCGG  314 (455)
Q Consensus       266 ----------------~~~v~~l~~~~~----~~~~~l~~ll~-----------~~~~~~IL~iDEiD~l~~~~~~~~~~  314 (455)
                                      ..+++.+.++..    .+.-++.+.+.           ......|||||||+.+..        
T Consensus        69 ~~~~~~~~~~~~~~~~~~pfv~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~L~~A~~GiL~lDEi~~l~~--------  140 (633)
T TIGR02442        69 EWCEECRRKYRPSEQRPVPFVNLPLGATEDRVVGSLDIERALREGEKAFQPGLLAEAHRGILYIDEVNLLDD--------  140 (633)
T ss_pred             ccChhhhhcccccccCCCCeeeCCCCCcHHHcCCcccHHHHhhcCCeeecCcceeecCCCeEEeChhhhCCH--------
Confidence                            235555544321    12222333331           112457999999998743        


Q ss_pred             CCCCCcchhhHhhhhhhhhcc---------cccCCCceEEEEEcCCC-CCCCccccCCCceeEEEEeCCCC-HHHHHHHH
Q 047029          315 GYDENNSQVTLSGLLNFVDGL---------WSSCGDERIIVFTTNYK-ERLDPALLRPGRMDMHIHMSYLT-PGGFKILA  383 (455)
Q Consensus       315 ~~~~~~~~~~ls~LL~~ldg~---------~~~~~~~~ivI~TTN~~-~~Ld~allRpGR~d~~I~~~~p~-~~~~~~L~  383 (455)
                              ..++.|++.|+.-         ........++|+|+|.. ..+.++|+.  ||+++|.++++. .+++.+++
T Consensus       141 --------~~q~~Ll~~le~g~~~v~r~g~~~~~~~~~~lIat~np~eg~l~~~L~d--R~~l~i~v~~~~~~~~~~~il  210 (633)
T TIGR02442       141 --------HLVDVLLDAAAMGVNRVEREGLSVSHPARFVLIGTMNPEEGDLRPQLLD--RFGLCVDVAAPRDPEERVEII  210 (633)
T ss_pred             --------HHHHHHHHHHhcCCEEEEECCceeeecCCeEEEEecCCCCCCCCHHHHh--hcceEEEccCCCchHHHHHHH
Confidence                    4566777777521         11122457888899964 368899999  999999999886 46677777


Q ss_pred             HHhh
Q 047029          384 FNYL  387 (455)
Q Consensus       384 ~~~l  387 (455)
                      .+.+
T Consensus       211 ~~~~  214 (633)
T TIGR02442       211 RRRL  214 (633)
T ss_pred             HHHH
Confidence            6544

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.06  E-value=2.1e-09  Score=116.58  Aligned_cols=165  Identities=21%  Similarity=0.262  Sum_probs=101.4

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEE-Ee---cc
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYD-ME---LA  275 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~-l~---~~  275 (455)
                      --.|.++++|+++++..+++...+....        .+..+.+.++|+||||||||++++++|+.++..+.. .+   +.
T Consensus        77 KyrP~~ldel~~~~~ki~~l~~~l~~~~--------~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~npv~~~  148 (637)
T TIGR00602        77 KYKPETQHELAVHKKKIEEVETWLKAQV--------LENAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPD  148 (637)
T ss_pred             HhCCCCHHHhcCcHHHHHHHHHHHHhcc--------cccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHhhhhhhc
Confidence            4678999999999988887766654321        123344569999999999999999999999865433 11   00


Q ss_pred             ----------c--------cCChHHHHHHHHhh------------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhH
Q 047029          276 ----------S--------LRSNSDLRRLLVST------------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTL  325 (455)
Q Consensus       276 ----------~--------~~~~~~l~~ll~~~------------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~l  325 (455)
                                .        ......+.+++...            .++.||+||||+.++.            . ....+
T Consensus       149 ~~~~~~~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~------------r-~~~~l  215 (637)
T TIGR00602       149 FQKNDHKVTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFY------------R-DTRAL  215 (637)
T ss_pred             ccccccccchhhhhccccccchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhch------------h-hHHHH
Confidence                      0        01123344444322            2467999999997653            1 11234


Q ss_pred             hhhhh-hhhcccccCCCceEEEEEcCCCC--------------CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          326 SGLLN-FVDGLWSSCGDERIIVFTTNYKE--------------RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       326 s~LL~-~ldg~~~~~~~~~ivI~TTN~~~--------------~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      ..+|. ...    ..+.-.+|+++|..+.              .|.++++...|+ .+|.|.+....+.++.+...+..+
T Consensus       216 q~lLr~~~~----e~~~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv-~~I~FnPia~t~l~K~L~rIl~~E  290 (637)
T TIGR00602       216 HEILRWKYV----SIGRCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRV-SNISFNPIAPTIMKKFLNRIVTIE  290 (637)
T ss_pred             HHHHHHHhh----cCCCceEEEEecCCccccccccccccchhcccCHhHhcccce-eEEEeCCCCHHHHHHHHHHHHHhh
Confidence            44444 111    1111123333442221              133677743355 479999999999888888888754

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=99.05  E-value=2.2e-09  Score=107.61  Aligned_cols=116  Identities=23%  Similarity=0.352  Sum_probs=85.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC------------------------CcEEEEeccccCC----hHHHHHHHHhh--
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK------------------------FDIYDMELASLRS----NSDLRRLLVST--  290 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~------------------------~~v~~l~~~~~~~----~~~l~~ll~~~--  290 (455)
                      +..+||+||||||||++|.++|+.+.                        .+++.++.++...    ...++++....  
T Consensus        24 ~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~~i~~~~vr~~~~~~~~  103 (325)
T COG0470          24 PHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKIDIIVEQVRELAEFLSE  103 (325)
T ss_pred             CceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCCCcchHHHHHHHHHHhcc
Confidence            33799999999999999999999996                        5788888877654    33455444332  


Q ss_pred             ----CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCcee
Q 047029          291 ----GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMD  366 (455)
Q Consensus       291 ----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d  366 (455)
                          ....|++|||+|.+-.                ...+.++..++-    .+.+..+|++||.+..+-+.+.+  |+ 
T Consensus       104 ~~~~~~~kviiidead~mt~----------------~A~nallk~lEe----p~~~~~~il~~n~~~~il~tI~S--Rc-  160 (325)
T COG0470         104 SPLEGGYKVVIIDEADKLTE----------------DAANALLKTLEE----PPKNTRFILITNDPSKILPTIRS--RC-  160 (325)
T ss_pred             CCCCCCceEEEeCcHHHHhH----------------HHHHHHHHHhcc----CCCCeEEEEEcCChhhccchhhh--cc-
Confidence                2457999999998743                334555555543    23568899999999999999998  88 


Q ss_pred             EEEEeCCCCHHHH
Q 047029          367 MHIHMSYLTPGGF  379 (455)
Q Consensus       367 ~~I~~~~p~~~~~  379 (455)
                      ..+.|..|+...+
T Consensus       161 ~~i~f~~~~~~~~  173 (325)
T COG0470         161 QRIRFKPPSRLEA  173 (325)
T ss_pred             eeeecCCchHHHH
Confidence            5788877555443

>smart00350 MCM minichromosome maintenance proteins

Probab=99.05  E-value=8.8e-10  Score=117.88  Aligned_cols=161  Identities=16%  Similarity=0.141  Sum_probs=98.9

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhc--CCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEE----eccccCC--
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVG--KAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM----ELASLRS--  279 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g--~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l----~~~~~~~--  279 (455)
                      .+.|.+.+|..|.-.+-   .+......-|  +....++||+|+||||||++++++++.+....+..    ++..+..  
T Consensus       204 ~i~G~~~~k~~l~l~l~---gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~~~  280 (509)
T smart00350      204 SIYGHEDIKKAILLLLF---GGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAV  280 (509)
T ss_pred             cccCcHHHHHHHHHHHh---CCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccccc
Confidence            46677777776654432   1100000001  11123699999999999999999999886544432    1111110  


Q ss_pred             -------hHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc---------cccCCCce
Q 047029          280 -------NSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL---------WSSCGDER  343 (455)
Q Consensus       280 -------~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~---------~~~~~~~~  343 (455)
                             ...++.-........+++|||+|.+..                ...+.|++.|+.-         ....+...
T Consensus       281 ~~~~~~g~~~~~~G~l~~A~~Gil~iDEi~~l~~----------------~~q~~L~e~me~~~i~i~k~G~~~~l~~~~  344 (509)
T smart00350      281 TRDPETREFTLEGGALVLADNGVCCIDEFDKMDD----------------SDRTAIHEAMEQQTISIAKAGITTTLNARC  344 (509)
T ss_pred             eEccCcceEEecCccEEecCCCEEEEechhhCCH----------------HHHHHHHHHHhcCEEEEEeCCEEEEecCCc
Confidence                   000111011123568999999998742                3455666666432         22223456


Q ss_pred             EEEEEcCCCC-------------CCCccccCCCceeEEEEe-CCCCHHHHHHHHHHhhcc
Q 047029          344 IIVFTTNYKE-------------RLDPALLRPGRMDMHIHM-SYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       344 ivI~TTN~~~-------------~Ld~allRpGR~d~~I~~-~~p~~~~~~~L~~~~l~~  389 (455)
                      .||+|+|+.+             .|++++++  |||+.+.+ ++|+.+....|+++.+..
T Consensus       345 ~viAa~NP~~g~y~~~~~~~~n~~l~~~lLs--RFdLi~~~~d~~~~~~d~~i~~~i~~~  402 (509)
T smart00350      345 SVLAAANPIGGRYDPKLTPEENIDLPAPILS--RFDLLFVVLDEVDEERDRELAKHVVDL  402 (509)
T ss_pred             EEEEEeCCCCcccCCCcChhhccCCChHHhC--ceeeEEEecCCCChHHHHHHHHHHHHh
Confidence            7999999763             59999999  99986554 889999999999886643

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.04  E-value=1.8e-09  Score=118.03  Aligned_cols=198  Identities=20%  Similarity=0.215  Sum_probs=126.7

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEEEec
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYDMEL  274 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~l~~  274 (455)
                      .+|-++|-++-.+++++.|.+             .-+++-+|.|+||+|||.++..+|...          +..++.+|+
T Consensus       168 klDPvIGRd~EI~r~iqIL~R-------------R~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~  234 (786)
T COG0542         168 KLDPVIGRDEEIRRTIQILSR-------------RTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDL  234 (786)
T ss_pred             CCCCCcChHHHHHHHHHHHhc-------------cCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecH
Confidence            367788888877777777652             226688999999999999999999987          678899998


Q ss_pred             cccCC--------hHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceE
Q 047029          275 ASLRS--------NSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERI  344 (455)
Q Consensus       275 ~~~~~--------~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~i  344 (455)
                      +.+..        +..++.++....  .+.|||||||+.+.+..+..+       . ..-.+.+|.-+-.    . ++.-
T Consensus       235 g~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G-------~-a~DAaNiLKPaLA----R-GeL~  301 (786)
T COG0542         235 GSLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEG-------G-AMDAANLLKPALA----R-GELR  301 (786)
T ss_pred             HHHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccc-------c-ccchhhhhHHHHh----c-CCeE
Confidence            87632        466777776553  378999999999976222111       0 1112222222111    1 4444


Q ss_pred             EEEEcC------CCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc--CCC---chHHHHHhhccccCchhHHH
Q 047029          345 IVFTTN------YKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK--SHS---MFDEIEELIKEVEVTPAEEF  413 (455)
Q Consensus       345 vI~TTN------~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~--~~~---l~~ei~~ll~~~~~tpa~~l  413 (455)
                      +|++|.      +.++ |+||-|  || ..|.+..|+.++--.|++-.-...  .|.   ..+.|....    ..+..++
T Consensus       302 ~IGATT~~EYRk~iEK-D~AL~R--RF-Q~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D~Al~aAv----~LS~RYI  373 (786)
T COG0542         302 CIGATTLDEYRKYIEK-DAALER--RF-QKVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAV----TLSDRYI  373 (786)
T ss_pred             EEEeccHHHHHHHhhh-chHHHh--cC-ceeeCCCCCHHHHHHHHHHHHHHHHHccCceecHHHHHHHH----HHHHhhc
Confidence            555443      4455 899999  99 579999999999777776443221  121   122222221    1122455


Q ss_pred             hccCCHHHHHHHHHHHHHHhhhh
Q 047029          414 MKSEDADVALNGLVDFLLRKKEQ  436 (455)
Q Consensus       414 ~~~~~~~~al~~l~~~l~~~~~~  436 (455)
                      -.+.-||.|++-+-++-.+.+..
T Consensus       374 ~dR~LPDKAIDLiDeA~a~~~l~  396 (786)
T COG0542         374 PDRFLPDKAIDLLDEAGARVRLE  396 (786)
T ss_pred             ccCCCCchHHHHHHHHHHHHHhc
Confidence            55667888888777777666654

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=99.02  E-value=3e-10  Score=105.00  Aligned_cols=94  Identities=27%  Similarity=0.466  Sum_probs=63.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc-------CChHHHHHHHHhhCCceEEEEecccchhhhhhh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL-------RSNSDLRRLLVSTGNRSILVIEDIDCSIELENR  310 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~-------~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~  310 (455)
                      +.|++|+||||||||+||.|+|+++   |..+..++..++       .......+.+....+..+|+|||+....     
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~~~dlLilDDlG~~~-----  121 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLKRVDLLILDDLGYEP-----  121 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHHTSSCEEEETCTSS------
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCccccccEecccccceee-----
Confidence            5799999999999999999999987   888888887665       1223445566666678999999997532     


Q ss_pred             cCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          311 QCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       311 ~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                               ........|.+.+|.....    .-+|+|||..
T Consensus       122 ---------~~~~~~~~l~~ii~~R~~~----~~tIiTSN~~  150 (178)
T PF01695_consen  122 ---------LSEWEAELLFEIIDERYER----KPTIITSNLS  150 (178)
T ss_dssp             -----------HHHHHCTHHHHHHHHHT-----EEEEEESS-
T ss_pred             ---------ecccccccchhhhhHhhcc----cCeEeeCCCc
Confidence                     1223345566666665432    3577799965

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.

>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=99.02  E-value=7.6e-09  Score=94.19  Aligned_cols=112  Identities=21%  Similarity=0.304  Sum_probs=80.3

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcC-----------------------CcEEEEecccc---CChHHHHHHHHhhC--
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLK-----------------------FDIYDMELASL---RSNSDLRRLLVSTG--  291 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~-----------------------~~v~~l~~~~~---~~~~~l~~ll~~~~--  291 (455)
                      .+..+||+||+|+||+++|.++|+.+-                       .+++.++....   ..-.+++++.....  
T Consensus        18 l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~i~i~~ir~i~~~~~~~   97 (162)
T PF13177_consen   18 LPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKKSIKIDQIREIIEFLSLS   97 (162)
T ss_dssp             --SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSSSBSHHHHHHHHHHCTSS
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccchhhHHHHHHHHHHHHHH
Confidence            366899999999999999999999872                       24555554432   24466776665442  


Q ss_pred             ----CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeE
Q 047029          292 ----NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDM  367 (455)
Q Consensus       292 ----~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~  367 (455)
                          ...|++|||+|.+-.                ...+.||..|+.-    +.+.++|++|+.++.|-|.+++  |+ .
T Consensus        98 ~~~~~~KviiI~~ad~l~~----------------~a~NaLLK~LEep----p~~~~fiL~t~~~~~il~TI~S--Rc-~  154 (162)
T PF13177_consen   98 PSEGKYKVIIIDEADKLTE----------------EAQNALLKTLEEP----PENTYFILITNNPSKILPTIRS--RC-Q  154 (162)
T ss_dssp             -TTSSSEEEEEETGGGS-H----------------HHHHHHHHHHHST----TTTEEEEEEES-GGGS-HHHHT--TS-E
T ss_pred             HhcCCceEEEeehHhhhhH----------------HHHHHHHHHhcCC----CCCEEEEEEECChHHChHHHHh--hc-e
Confidence                367999999998743                5667888888764    3568999999999999999999  88 5


Q ss_pred             EEEeCCC
Q 047029          368 HIHMSYL  374 (455)
Q Consensus       368 ~I~~~~p  374 (455)
                      .+.|+..
T Consensus       155 ~i~~~~l  161 (162)
T PF13177_consen  155 VIRFRPL  161 (162)
T ss_dssp             EEEE---
T ss_pred             EEecCCC
Confidence            6777654

...

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=99.01  E-value=1e-09  Score=107.10  Aligned_cols=123  Identities=24%  Similarity=0.411  Sum_probs=78.7

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC--
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR--  278 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~--  278 (455)
                      .++.++-+.+...+.....+..+..   +|.     .+.|++||||||||||+|+.|||+++   |..++.+...++.  
T Consensus        76 ~~~~d~~~~~~~~~~~l~~~~~~~~---~~~-----~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~  147 (254)
T COG1484          76 FEEFDFEFQPGIDKKALEDLASLVE---FFE-----RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSK  147 (254)
T ss_pred             cccccccCCcchhHHHHHHHHHHHH---Hhc-----cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHH
Confidence            3445566666666666555554442   222     36799999999999999999999998   7788888877652  


Q ss_pred             -----ChHHH-HHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 -----SNSDL-RRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 -----~~~~l-~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                           ..... .++.....+..+|+|||+.....              ....-+.+++.|+.....   ... ++|||.+
T Consensus       148 Lk~~~~~~~~~~~l~~~l~~~dlLIiDDlG~~~~--------------~~~~~~~~~q~I~~r~~~---~~~-~~tsN~~  209 (254)
T COG1484         148 LKAAFDEGRLEEKLLRELKKVDLLIIDDIGYEPF--------------SQEEADLLFQLISRRYES---RSL-IITSNLS  209 (254)
T ss_pred             HHHHHhcCchHHHHHHHhhcCCEEEEecccCccC--------------CHHHHHHHHHHHHHHHhh---ccc-eeecCCC
Confidence                 11122 23334467789999999987421              112223444445544332   233 9999975

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.98  E-value=2.6e-09  Score=107.82  Aligned_cols=104  Identities=21%  Similarity=0.321  Sum_probs=68.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCC---------hHHHHHHHHhhCCceEEEEecccchhhhh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRS---------NSDLRRLLVSTGNRSILVIEDIDCSIELE  308 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~---------~~~l~~ll~~~~~~~IL~iDEiD~l~~~~  308 (455)
                      ..+++||||||||||+|+.|+|+++   |..++.+....+..         .......+....+..+|+|||++....  
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l~~~DLLIIDDlG~e~~--  260 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLLINCDLLIIDDLGTEKI--  260 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHhccCCEEEEeccCCCCC--
Confidence            3789999999999999999999998   77888777655411         112222245555678999999986421  


Q ss_pred             hhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC-C----CCCccccC
Q 047029          309 NRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK-E----RLDPALLR  361 (455)
Q Consensus       309 ~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~-~----~Ld~allR  361 (455)
                                  .....+.|.+.++.....   +.-+|+|||.+ +    .+++++..
T Consensus       261 ------------t~~~~~~Lf~iin~R~~~---~k~tIiTSNl~~~el~~~~~eri~S  303 (329)
T PRK06835        261 ------------TEFSKSELFNLINKRLLR---QKKMIISTNLSLEELLKTYSERISS  303 (329)
T ss_pred             ------------CHHHHHHHHHHHHHHHHC---CCCEEEECCCCHHHHHHHHhHHHHH
Confidence                        223345566666654432   34578899853 2    24555655

>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=98.97  E-value=2.6e-09  Score=105.24  Aligned_cols=135  Identities=24%  Similarity=0.466  Sum_probs=81.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCc---EEEEeccccCChHHHHHHHHhh-------------CCceEEEEecccch
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFD---IYDMELASLRSNSDLRRLLVST-------------GNRSILVIEDIDCS  304 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~---v~~l~~~~~~~~~~l~~ll~~~-------------~~~~IL~iDEiD~l  304 (455)
                      ++.+||.||+|||||++++.+-+.+.-.   +..+.++...+...+++++...             .++.|+||||+..-
T Consensus        33 ~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~Tts~~~q~~ie~~l~k~~~~~~gP~~~k~lv~fiDDlN~p  112 (272)
T PF12775_consen   33 GRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQTTSNQLQKIIESKLEKRRGRVYGPPGGKKLVLFIDDLNMP  112 (272)
T ss_dssp             TEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TTHHHHHHHHCCCTTECECTTEEEEEESSSEEEEEEETTT-S
T ss_pred             CCcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCCCCHHHHHHHHhhcEEcCCCCCCCCCCCcEEEEEecccCCC
Confidence            6789999999999999999887766433   3345555554455565554322             13579999999965


Q ss_pred             hhhhhhcCCCCCCCCcchhhHhhhh-hhhh--cccccCC------CceEEEEEcCCCC---CCCccccCCCceeEEEEeC
Q 047029          305 IELENRQCGGGYDENNSQVTLSGLL-NFVD--GLWSSCG------DERIIVFTTNYKE---RLDPALLRPGRMDMHIHMS  372 (455)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~ls~LL-~~ld--g~~~~~~------~~~ivI~TTN~~~---~Ld~allRpGR~d~~I~~~  372 (455)
                      ..          +.-..+..+ +|| +.||  |.++...      .++.+|+++|+..   .+++.++|  .| ..+.++
T Consensus       113 ~~----------d~ygtq~~i-ElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is~R~~r--~f-~i~~~~  178 (272)
T PF12775_consen  113 QP----------DKYGTQPPI-ELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLR--HF-NILNIP  178 (272)
T ss_dssp             -------------TTS--HHH-HHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHT--TE-EEEE--
T ss_pred             CC----------CCCCCcCHH-HHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhh--he-EEEEec
Confidence            32          111122222 333 3343  4443221      3466888888642   47889998  88 479999


Q ss_pred             CCCHHHHHHHHHHhhcc
Q 047029          373 YLTPGGFKILAFNYLKI  389 (455)
Q Consensus       373 ~p~~~~~~~L~~~~l~~  389 (455)
                      +|+.++...|+..++..
T Consensus       179 ~p~~~sl~~If~~il~~  195 (272)
T PF12775_consen  179 YPSDESLNTIFSSILQS  195 (272)
T ss_dssp             --TCCHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHhh
Confidence            99999988888777653

>PRK04132 replication factor C small subunit; Provisional

Probab=98.95  E-value=9.4e-09  Score=114.39  Aligned_cols=127  Identities=11%  Similarity=0.151  Sum_probs=100.1

Q ss_pred             eEEEC--CCCCChHHHHHHHHHHc-----CCcEEEEeccccCChHHHHHHHHhhC--------CceEEEEecccchhhhh
Q 047029          244 YLLYG--PPGTGKSSLIAAMANYL-----KFDIYDMELASLRSNSDLRRLLVSTG--------NRSILVIEDIDCSIELE  308 (455)
Q Consensus       244 ~LL~G--PpGTGKTsla~alA~~l-----~~~v~~l~~~~~~~~~~l~~ll~~~~--------~~~IL~iDEiD~l~~~~  308 (455)
                      .+..|  |++.||||+|.|+|+++     +.+++.++.++..+...+++++....        +..|++|||+|.+-.  
T Consensus       567 ~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~~~~~~KVvIIDEaD~Lt~--  644 (846)
T PRK04132        567 NFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQ--  644 (846)
T ss_pred             hhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCcCCCCCEEEEEECcccCCH--
Confidence            35558  99999999999999998     56899999998767777887764421        236999999998732  


Q ss_pred             hhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          309 NRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       309 ~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                                    ...+.|+..|+..    ++...+|++||++..+.+++++  |+ ..+.|+.|+.++....+...+.
T Consensus       645 --------------~AQnALLk~lEep----~~~~~FILi~N~~~kIi~tIrS--RC-~~i~F~~ls~~~i~~~L~~I~~  703 (846)
T PRK04132        645 --------------DAQQALRRTMEMF----SSNVRFILSCNYSSKIIEPIQS--RC-AIFRFRPLRDEDIAKRLRYIAE  703 (846)
T ss_pred             --------------HHHHHHHHHhhCC----CCCeEEEEEeCChhhCchHHhh--hc-eEEeCCCCCHHHHHHHHHHHHH
Confidence                          3456677777753    2457899999999999999999  88 6899999999998888887766


Q ss_pred             ccCCC
Q 047029          389 IKSHS  393 (455)
Q Consensus       389 ~~~~~  393 (455)
                      .++..
T Consensus       704 ~Egi~  708 (846)
T PRK04132        704 NEGLE  708 (846)
T ss_pred             hcCCC
Confidence            54433

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=98.93  E-value=1.2e-08  Score=103.28  Aligned_cols=154  Identities=16%  Similarity=0.205  Sum_probs=103.5

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChH
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNS  281 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~  281 (455)
                      -|++++|....-+.+++.+......           ...|||+|++||||+++|+++....   +.+++.++|..+.. .
T Consensus         4 ~~~~liG~S~~~~~~~~~i~~~a~~-----------~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~-~   71 (326)
T PRK11608          4 YKDNLLGEANSFLEVLEQVSRLAPL-----------DKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNE-N   71 (326)
T ss_pred             ccCccEECCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCH-H
Confidence            4678999888888888888765533           4579999999999999999998766   46899999998743 3


Q ss_pred             HHHHHHH------------------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-ccCC--
Q 047029          282 DLRRLLV------------------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-SSCG--  340 (455)
Q Consensus       282 ~l~~ll~------------------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~~~~--  340 (455)
                      .+...+.                  ....+..|||||||.+..                .....|++.++.-. ...+  
T Consensus        72 ~~~~~lfg~~~~~~~g~~~~~~g~l~~a~gGtL~l~~i~~L~~----------------~~Q~~L~~~l~~~~~~~~g~~  135 (326)
T PRK11608         72 LLDSELFGHEAGAFTGAQKRHPGRFERADGGTLFLDELATAPM----------------LVQEKLLRVIEYGELERVGGS  135 (326)
T ss_pred             HHHHHHccccccccCCcccccCCchhccCCCeEEeCChhhCCH----------------HHHHHHHHHHhcCcEEeCCCC
Confidence            3333321                  223467899999998843                34455666665321 1111  


Q ss_pred             ----CceEEEEEcCCC-------CCCCccccCCCce-eEEEEeCCCCH--HHHHHHHHHhhc
Q 047029          341 ----DERIIVFTTNYK-------ERLDPALLRPGRM-DMHIHMSYLTP--GGFKILAFNYLK  388 (455)
Q Consensus       341 ----~~~ivI~TTN~~-------~~Ld~allRpGR~-d~~I~~~~p~~--~~~~~L~~~~l~  388 (455)
                          .++.||+||+..       ..+.+.|..  || ...|++|+...  +....|+.+|+.
T Consensus       136 ~~~~~~~RiI~~s~~~l~~l~~~g~f~~dL~~--~l~~~~i~lPpLReR~eDI~~L~~~fl~  195 (326)
T PRK11608        136 QPLQVNVRLVCATNADLPAMVAEGKFRADLLD--RLAFDVVQLPPLRERQSDIMLMAEHFAI  195 (326)
T ss_pred             ceeeccEEEEEeCchhHHHHHHcCCchHHHHH--hcCCCEEECCChhhhhhhHHHHHHHHHH
Confidence                235677877753       345566666  77 45677766544  335567776653

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=98.93  E-value=1.7e-08  Score=102.34  Aligned_cols=125  Identities=18%  Similarity=0.196  Sum_probs=92.4

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcCCc-------------------------EEEEeccc-----------------
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFD-------------------------IYDMELAS-----------------  276 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~~~-------------------------v~~l~~~~-----------------  276 (455)
                      ..+.+|||+||+|+||+++|.++|+.+.+.                         ++.+....                 
T Consensus        19 rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~~~~~~~~~~~~~~   98 (342)
T PRK06964         19 RLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAEAPGAADEAKEADA   98 (342)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccccccccccccchh
Confidence            346799999999999999999999988431                         22221110                 


Q ss_pred             ------------cCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc
Q 047029          277 ------------LRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS  338 (455)
Q Consensus       277 ------------~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~  338 (455)
                                  .-.-.+++.+.....      ...|++||++|.+-.                ...+.||..++.    
T Consensus        99 ~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~----------------~AaNaLLKtLEE----  158 (342)
T PRK06964         99 DEGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGARVVVLYPAEALNV----------------AAANALLKTLEE----  158 (342)
T ss_pred             hcccccccccccccCHHHHHHHHHHhccCCccCCceEEEEechhhcCH----------------HHHHHHHHHhcC----
Confidence                        112245666554432      346999999998732                456788888874    


Q ss_pred             CCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHh
Q 047029          339 CGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNY  386 (455)
Q Consensus       339 ~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~  386 (455)
                      .+++.++|++|+.++.|.|.+++  |+ ..|.|+.|+.++..+.+...
T Consensus       159 Pp~~t~fiL~t~~~~~LLpTI~S--Rc-q~i~~~~~~~~~~~~~L~~~  203 (342)
T PRK06964        159 PPPGTVFLLVSARIDRLLPTILS--RC-RQFPMTVPAPEAAAAWLAAQ  203 (342)
T ss_pred             CCcCcEEEEEECChhhCcHHHHh--cC-EEEEecCCCHHHHHHHHHHc
Confidence            35678999999999999999999  98 68999999998887766653

>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=98.92  E-value=5.9e-09  Score=95.48  Aligned_cols=116  Identities=20%  Similarity=0.188  Sum_probs=74.4

Q ss_pred             cccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHHHH
Q 047029          209 LAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDLRR  285 (455)
Q Consensus       209 l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l~~  285 (455)
                      |+|....-+++++.+......           +..|||+|++||||+.+|++|.+..   +.+++.++|+.+..+.--.+
T Consensus         1 liG~s~~m~~~~~~~~~~a~~-----------~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~   69 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASS-----------DLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESE   69 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTS-----------TS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHH
T ss_pred             CEeCCHHHHHHHHHHHHHhCC-----------CCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhh
Confidence            355556666676766654433           5689999999999999999999976   46899999998743332233


Q ss_pred             HHHh-----------------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc-cccCC------C
Q 047029          286 LLVS-----------------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL-WSSCG------D  341 (455)
Q Consensus       286 ll~~-----------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~-~~~~~------~  341 (455)
                      +|-.                 ..+...||||||+.+..                .....|++.|+.- ....+      -
T Consensus        70 LFG~~~~~~~~~~~~~~G~l~~A~~GtL~Ld~I~~L~~----------------~~Q~~Ll~~l~~~~~~~~g~~~~~~~  133 (168)
T PF00158_consen   70 LFGHEKGAFTGARSDKKGLLEQANGGTLFLDEIEDLPP----------------ELQAKLLRVLEEGKFTRLGSDKPVPV  133 (168)
T ss_dssp             HHEBCSSSSTTTSSEBEHHHHHTTTSEEEEETGGGS-H----------------HHHHHHHHHHHHSEEECCTSSSEEE-
T ss_pred             hhccccccccccccccCCceeeccceEEeecchhhhHH----------------HHHHHHHHHHhhchhccccccccccc
Confidence            4421                 12457999999999854                4556677777632 11111      2


Q ss_pred             ceEEEEEcCC
Q 047029          342 ERIIVFTTNY  351 (455)
Q Consensus       342 ~~ivI~TTN~  351 (455)
                      ++-||+|||.
T Consensus       134 ~~RiI~st~~  143 (168)
T PF00158_consen  134 DVRIIASTSK  143 (168)
T ss_dssp             -EEEEEEESS
T ss_pred             cceEEeecCc
Confidence            4668888875

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 ....

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.92  E-value=1.4e-08  Score=109.50  Aligned_cols=157  Identities=19%  Similarity=0.221  Sum_probs=104.8

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCC
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRS  279 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~  279 (455)
                      ..+|+.++|....-+++++.+......           ...+||+|++||||+++|+++....   +.+++.++|..+..
T Consensus       192 ~~~~~~liG~s~~~~~~~~~~~~~a~~-----------~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~  260 (534)
T TIGR01817       192 SGKEDGIIGKSPAMRQVVDQARVVARS-----------NSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSE  260 (534)
T ss_pred             cCccCceEECCHHHHHHHHHHHHHhCc-----------CCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCH
Confidence            357999999999988888888765432           4579999999999999999999886   56899999998743


Q ss_pred             hHHHHHHHH------------------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc-cccCC
Q 047029          280 NSDLRRLLV------------------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL-WSSCG  340 (455)
Q Consensus       280 ~~~l~~ll~------------------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~-~~~~~  340 (455)
                       ..+...+.                  ...++..||||||+.+..                .....|+..++.- ....+
T Consensus       261 -~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~----------------~~Q~~Ll~~l~~~~~~~~~  323 (534)
T TIGR01817       261 -TLLESELFGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISP----------------AFQAKLLRVLQEGEFERVG  323 (534)
T ss_pred             -HHHHHHHcCCCCCccCCCCcCCCCcccccCCCeEEEechhhCCH----------------HHHHHHHHHHhcCcEEECC
Confidence             33333321                  123467999999998743                3445667766532 11111


Q ss_pred             ------CceEEEEEcCCC-------CCCCccccCCCce-eEEEEeCCCC--HHHHHHHHHHhhcc
Q 047029          341 ------DERIIVFTTNYK-------ERLDPALLRPGRM-DMHIHMSYLT--PGGFKILAFNYLKI  389 (455)
Q Consensus       341 ------~~~ivI~TTN~~-------~~Ld~allRpGR~-d~~I~~~~p~--~~~~~~L~~~~l~~  389 (455)
                            .++-+|+|||..       ..+.+.|..  |+ ...|.+|+..  .+....|+..|+..
T Consensus       324 ~~~~~~~~~riI~~s~~~l~~~~~~~~f~~~L~~--rl~~~~i~lPpLreR~eDi~~L~~~~l~~  386 (534)
T TIGR01817       324 GNRTLKVDVRLVAATNRDLEEAVAKGEFRADLYY--RINVVPIFLPPLRERREDIPLLAEAFLEK  386 (534)
T ss_pred             CCceEeecEEEEEeCCCCHHHHHHcCCCCHHHHH--HhcCCeeeCCCcccccccHHHHHHHHHHH
Confidence                  135677777643       123333333  44 3467777665  35566777777653

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.

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.90  E-value=1.8e-08  Score=110.94  Aligned_cols=155  Identities=21%  Similarity=0.180  Sum_probs=100.4

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCCh
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSN  280 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~  280 (455)
                      .+|++++|....-+++++.+......           ...+||+|++||||+++|+++.+..   +.+++.++|..+..+
T Consensus       322 ~~~~~l~g~s~~~~~~~~~~~~~a~~-----------~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~  390 (638)
T PRK11388        322 HTFDHMPQDSPQMRRLIHFGRQAAKS-----------SFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDE  390 (638)
T ss_pred             ccccceEECCHHHHHHHHHHHHHhCc-----------CCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChH
Confidence            46899999888888888877765543           4479999999999999999999876   468999999987542


Q ss_pred             HHHHHHHHh--------------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-ccCCC----
Q 047029          281 SDLRRLLVS--------------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-SSCGD----  341 (455)
Q Consensus       281 ~~l~~ll~~--------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~~~~~----  341 (455)
                      .--.++|..              ..++..||||||+.+..                .....|+..++.-. ...+.    
T Consensus       391 ~~~~elfg~~~~~~~~~~~g~~~~a~~GtL~ldei~~l~~----------------~~Q~~Ll~~l~~~~~~~~~~~~~~  454 (638)
T PRK11388        391 ALAEEFLGSDRTDSENGRLSKFELAHGGTLFLEKVEYLSP----------------ELQSALLQVLKTGVITRLDSRRLI  454 (638)
T ss_pred             HHHHHhcCCCCcCccCCCCCceeECCCCEEEEcChhhCCH----------------HHHHHHHHHHhcCcEEeCCCCceE
Confidence            222234321              23467899999998743                33455666665321 11111    


Q ss_pred             --ceEEEEEcCCCCCCCccccCCCce---------eEEEEeCCCCHH--HHHHHHHHhhc
Q 047029          342 --ERIIVFTTNYKERLDPALLRPGRM---------DMHIHMSYLTPG--GFKILAFNYLK  388 (455)
Q Consensus       342 --~~ivI~TTN~~~~Ld~allRpGR~---------d~~I~~~~p~~~--~~~~L~~~~l~  388 (455)
                        ++-||+|||..-   ..+...|+|         ...|.+|+....  ....|+..|+.
T Consensus       455 ~~~~riI~~t~~~l---~~~~~~~~f~~dL~~~l~~~~i~lPpLreR~~Di~~L~~~~l~  511 (638)
T PRK11388        455 PVDVRVIATTTADL---AMLVEQNRFSRQLYYALHAFEITIPPLRMRREDIPALVNNKLR  511 (638)
T ss_pred             EeeEEEEEeccCCH---HHHHhcCCChHHHhhhhceeEEeCCChhhhhhHHHHHHHHHHH
Confidence              356888887531   222233444         455666655442  35566776665

>PRK09183 transposase/IS protein; Provisional

Probab=98.89  E-value=3.6e-09  Score=103.61  Aligned_cols=154  Identities=17%  Similarity=0.218  Sum_probs=86.6

Q ss_pred             HhhhhHHHHHHHHHHhccceEEEeecCcccccccCCCCCCcccccC--HHHHHHHHHHHHHHHHhHHHHhhhcCCCCcee
Q 047029          167 NKYLPYVAERSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMD--PVLKQALIDDLDRFVKRREFYSRVGKAWKRGY  244 (455)
Q Consensus       167 ~~yl~~v~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~tfd~l~g~--~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~  244 (455)
                      .+|+..+++...+.++.++..+..     ....|+.+.+++++...  +...+..+..+..    -.+     +....++
T Consensus        40 ~e~l~~ll~~E~~~R~~~~~~~~~-----k~a~~p~~~~l~~fd~~~~~~~~~~~i~~L~~----~~~-----i~~~~~v  105 (259)
T PRK09183         40 MDFLEHLLHEEKLARHQRKQAMYT-----RMAAFPAVKTFEEYDFTFATGAPQKQLQSLRS----LSF-----IERNENI  105 (259)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-----HhCCCCCCCcHhhcccccCCCCCHHHHHHHhc----CCc-----hhcCCeE
Confidence            356666777666665554433221     22244555665554431  2222333333321    111     1225689


Q ss_pred             EEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC-------ChHHHHHHHHh-hCCceEEEEecccchhhhhhhcCC
Q 047029          245 LLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR-------SNSDLRRLLVS-TGNRSILVIEDIDCSIELENRQCG  313 (455)
Q Consensus       245 LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~-------~~~~l~~ll~~-~~~~~IL~iDEiD~l~~~~~~~~~  313 (455)
                      +|+||||||||+|+.++|+.+   |..+..++...+.       ....+...+.. ...+.+++|||++....       
T Consensus       106 ~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~~~~~dlLiiDdlg~~~~-------  178 (259)
T PRK09183        106 VLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRGVMAPRLLIIDEIGYLPF-------  178 (259)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHHhcCCCEEEEcccccCCC-------
Confidence            999999999999999998775   7777777655432       11123344433 45678999999986421       


Q ss_pred             CCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          314 GGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       314 ~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                             .......|++.++.....    .-+|+|||.+
T Consensus       179 -------~~~~~~~lf~li~~r~~~----~s~iiTsn~~  206 (259)
T PRK09183        179 -------SQEEANLFFQVIAKRYEK----GSMILTSNLP  206 (259)
T ss_pred             -------ChHHHHHHHHHHHHHHhc----CcEEEecCCC
Confidence                   112223455555554332    2378899965

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.88  E-value=1.2e-08  Score=103.24  Aligned_cols=149  Identities=18%  Similarity=0.212  Sum_probs=94.8

Q ss_pred             ccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHHHHH
Q 047029          210 AMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDLRRL  286 (455)
Q Consensus       210 ~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l~~l  286 (455)
                      +|....-+++++.+......           ...|||+|++||||+++|+++....   +.+++.++|..+.. ..+...
T Consensus         2 iG~S~~m~~~~~~~~~~a~~-----------~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~-~~l~~~   69 (329)
T TIGR02974         2 IGESNAFLEVLEQVSRLAPL-----------DRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSE-NLLDSE   69 (329)
T ss_pred             CcCCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCCh-HHHHHH
Confidence            45555566666666654322           4579999999999999999998776   46899999997643 333332


Q ss_pred             H------------------HhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-cc------CCC
Q 047029          287 L------------------VSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-SS------CGD  341 (455)
Q Consensus       287 l------------------~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~~------~~~  341 (455)
                      +                  .....+..||||||+.+..                .....|+..++.-. ..      ...
T Consensus        70 lfG~~~g~~~ga~~~~~G~~~~a~gGtL~Ldei~~L~~----------------~~Q~~Ll~~l~~~~~~~~g~~~~~~~  133 (329)
T TIGR02974        70 LFGHEAGAFTGAQKRHQGRFERADGGTLFLDELATASL----------------LVQEKLLRVIEYGEFERVGGSQTLQV  133 (329)
T ss_pred             HhccccccccCcccccCCchhhCCCCEEEeCChHhCCH----------------HHHHHHHHHHHcCcEEecCCCceecc
Confidence            2                  1223568999999998743                33455666664321 11      113


Q ss_pred             ceEEEEEcCCC-------CCCCccccCCCcee-EEEEeCCCC--HHHHHHHHHHhhc
Q 047029          342 ERIIVFTTNYK-------ERLDPALLRPGRMD-MHIHMSYLT--PGGFKILAFNYLK  388 (455)
Q Consensus       342 ~~ivI~TTN~~-------~~Ld~allRpGR~d-~~I~~~~p~--~~~~~~L~~~~l~  388 (455)
                      ++.+|++||..       ..+.+.|..  |+. ..|++|+..  .+....|+..|+.
T Consensus       134 ~~RiI~at~~~l~~~~~~g~fr~dL~~--rl~~~~i~lPpLReR~eDI~~L~~~fl~  188 (329)
T TIGR02974       134 DVRLVCATNADLPALAAEGRFRADLLD--RLAFDVITLPPLRERQEDIMLLAEHFAI  188 (329)
T ss_pred             ceEEEEechhhHHHHhhcCchHHHHHH--HhcchhcCCCchhhhhhhHHHHHHHHHH
Confidence            45677888743       234456665  663 466776665  3445667777664

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

>PRK06921 hypothetical protein; Provisional

Probab=98.88  E-value=1.3e-08  Score=100.09  Aligned_cols=63  Identities=27%  Similarity=0.312  Sum_probs=45.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc----CCcEEEEeccccCC-----hHHHHHHHHhhCCceEEEEecccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMELASLRS-----NSDLRRLLVSTGNRSILVIEDIDC  303 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~~~~~~-----~~~l~~ll~~~~~~~IL~iDEiD~  303 (455)
                      ..+++|+||||||||+|+.|+|+++    +..++.+...++..     -..+.+.+....+..+|+|||++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~~~~~~~~~~~~~~~dlLiIDDl~~  188 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDDFDLLEAKLNRMKKVEVLFIDDLFK  188 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHHHHHHHHHHHHhcCCCEEEEecccc
Confidence            5689999999999999999999987    56677776544311     112233445556788999999954

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

Probab=98.87  E-value=9.7e-09  Score=96.69  Aligned_cols=151  Identities=19%  Similarity=0.278  Sum_probs=96.2

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-C----CcEEEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-K----FDIYDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-~----~~v~~l~~~  275 (455)
                      -.|.-+.+++|+++..+.+.-..    +.       |-.  .++++.|||||||||-+.++|++| |    -.+..++.+
T Consensus        21 YrP~~l~dIVGNe~tv~rl~via----~~-------gnm--P~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNAS   87 (333)
T KOG0991|consen   21 YRPSVLQDIVGNEDTVERLSVIA----KE-------GNM--PNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNAS   87 (333)
T ss_pred             hCchHHHHhhCCHHHHHHHHHHH----Hc-------CCC--CceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCc
Confidence            45777899999988766553322    21       222  379999999999999999999998 3    346677777


Q ss_pred             ccCChHHHHH---HHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEE
Q 047029          276 SLRSNSDLRR---LLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIV  346 (455)
Q Consensus       276 ~~~~~~~l~~---ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI  346 (455)
                      +-.+-.-++.   .|.+.      .+..|+++||+|++-.             ..++.   |-..|+-. +   ...-+.
T Consensus        88 deRGIDvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~-------------gAQQA---lRRtMEiy-S---~ttRFa  147 (333)
T KOG0991|consen   88 DERGIDVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMTA-------------GAQQA---LRRTMEIY-S---NTTRFA  147 (333)
T ss_pred             cccccHHHHHHHHHHHHhhccCCCCceeEEEeeccchhhh-------------HHHHH---HHHHHHHH-c---ccchhh
Confidence            7655444443   34332      1347999999998743             11222   22333322 2   123467


Q ss_pred             EEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       347 ~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      +++|..+++-+.+-+  |+. .+.++..+..+...-+....
T Consensus       148 laCN~s~KIiEPIQS--RCA-iLRysklsd~qiL~Rl~~v~  185 (333)
T KOG0991|consen  148 LACNQSEKIIEPIQS--RCA-ILRYSKLSDQQILKRLLEVA  185 (333)
T ss_pred             hhhcchhhhhhhHHh--hhH-hhhhcccCHHHHHHHHHHHH
Confidence            889988888888877  774 35666666666443333333

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=98.84  E-value=9.1e-09  Score=111.76  Aligned_cols=128  Identities=19%  Similarity=0.181  Sum_probs=89.8

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCC--cEEEEecccc----CChHHHHHHHH-----------hhCCceEEEEecccch
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKF--DIYDMELASL----RSNSDLRRLLV-----------STGNRSILVIEDIDCS  304 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~--~v~~l~~~~~----~~~~~l~~ll~-----------~~~~~~IL~iDEiD~l  304 (455)
                      .|+||.|+||||||++++++++.++.  +++.+.+...    -+.-.+...+.           ...+..+||||||+.+
T Consensus        17 g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~idl~~~~~~g~~~~~~G~L~~A~~GvL~lDEi~rl   96 (589)
T TIGR02031        17 GGVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGIDVEESLAGGQRVTQPGLLDEAPRGVLYVDMANLL   96 (589)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccchhhhhhhhcCcccCCCCCeeeCCCCcEeccchhhC
Confidence            47999999999999999999998864  4666664211    11111221111           1134579999999987


Q ss_pred             hhhhhhcCCCCCCCCcchhhHhhhhhhhhcc---------cccCCCceEEEEEcCCCC---CCCccccCCCceeEEEEeC
Q 047029          305 IELENRQCGGGYDENNSQVTLSGLLNFVDGL---------WSSCGDERIIVFTTNYKE---RLDPALLRPGRMDMHIHMS  372 (455)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~---------~~~~~~~~ivI~TTN~~~---~Ld~allRpGR~d~~I~~~  372 (455)
                      .+                .+.+.|++.|+.-         ....+....+|+|+|..+   .|.++|+.  ||+++|.+.
T Consensus        97 ~~----------------~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~Lld--Rf~l~v~~~  158 (589)
T TIGR02031        97 DD----------------GLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLD--RLALHVSLE  158 (589)
T ss_pred             CH----------------HHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHH--hccCeeecC
Confidence            43                5667788887632         122234567889999775   78999999  999999998


Q ss_pred             CC-CHHHHHHHHHHhh
Q 047029          373 YL-TPGGFKILAFNYL  387 (455)
Q Consensus       373 ~p-~~~~~~~L~~~~l  387 (455)
                      ++ ..++|.+|+++++
T Consensus       159 ~~~~~~er~eil~~~~  174 (589)
T TIGR02031       159 DVASQDLRVEIVRRER  174 (589)
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            75 5666888888876

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. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.83  E-value=7.8e-08  Score=102.57  Aligned_cols=165  Identities=21%  Similarity=0.323  Sum_probs=100.7

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEe-cccc-
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME-LASL-  277 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~-~~~~-  277 (455)
                      --.|.+.++|+......+++..++...+.        +..+.+-+||+||||||||++++++|+++|+.+.... .... 
T Consensus        12 ky~P~~~~eLavhkkKv~eV~~wl~~~~~--------~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew~np~~~~   83 (519)
T PF03215_consen   12 KYAPKTLDELAVHKKKVEEVRSWLEEMFS--------GSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEWINPVSFR   83 (519)
T ss_pred             hcCCCCHHHhhccHHHHHHHHHHHHHHhc--------cCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEecCCCCcc
Confidence            35689999999998877777777764332        3344567899999999999999999999998877642 1110 


Q ss_pred             ---------CC-----------hHHHHHH-HHhh-------------CCceEEEEecccchhhhhhhcCCCCCCCCcchh
Q 047029          278 ---------RS-----------NSDLRRL-LVST-------------GNRSILVIEDIDCSIELENRQCGGGYDENNSQV  323 (455)
Q Consensus       278 ---------~~-----------~~~l~~l-l~~~-------------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~  323 (455)
                               .+           ...+..+ +...             .++.||+|||+-.++.            ... .
T Consensus        84 ~~~~~~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~------------~~~-~  150 (519)
T PF03215_consen   84 ESDNQEDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFH------------RDT-S  150 (519)
T ss_pred             ccccccccccccccccccccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccc------------hhH-H
Confidence                     00           0112222 1111             2467999999976542            111 2


Q ss_pred             hHhh-hhhhhhcccccCCC-ceEEEEE-c------CCC--------CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHh
Q 047029          324 TLSG-LLNFVDGLWSSCGD-ERIIVFT-T------NYK--------ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNY  386 (455)
Q Consensus       324 ~ls~-LL~~ldg~~~~~~~-~~ivI~T-T------N~~--------~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~  386 (455)
                      .+.. |...+..    ... .+|||+| +      |..        ..+++.++.-.++ .+|.|-+-.....+..+.+.
T Consensus       151 ~f~~~L~~~l~~----~~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i-~~I~FNpIa~T~mkKaL~rI  225 (519)
T PF03215_consen  151 RFREALRQYLRS----SRCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGI-TRIKFNPIAPTFMKKALKRI  225 (519)
T ss_pred             HHHHHHHHHHHc----CCCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCc-eEEEecCCCHHHHHHHHHHH
Confidence            2222 2233322    222 5677776 1      111        1355666654455 57899888887777777776


Q ss_pred             hccc
Q 047029          387 LKIK  390 (455)
Q Consensus       387 l~~~  390 (455)
                      +..+
T Consensus       226 ~~~E  229 (519)
T PF03215_consen  226 LKKE  229 (519)
T ss_pred             HHHH
Confidence            6544

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=98.83  E-value=8.4e-08  Score=96.62  Aligned_cols=59  Identities=19%  Similarity=0.224  Sum_probs=39.4

Q ss_pred             eEEEEEcCC------------CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhcc
Q 047029          343 RIIVFTTNY------------KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKE  404 (455)
Q Consensus       343 ~ivI~TTN~------------~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~  404 (455)
                      -+||++||+            |..++..|+.  |+ +.|...+++.++.+++++..+..++..+.++.-.++..
T Consensus       308 PiiIlATNRg~~~irGt~~~sphGiP~DlLD--Rl-lII~t~py~~~ei~~Il~iR~~~E~v~i~~~al~~L~~  378 (398)
T PF06068_consen  308 PIIILATNRGITKIRGTDIISPHGIPLDLLD--RL-LIIRTKPYSEEEIKQILKIRAKEEDVEISEDALDLLTK  378 (398)
T ss_dssp             -EEEEEES-SEEE-BTTS-EEETT--HHHHT--TE-EEEEE----HHHHHHHHHHHHHHCT--B-HHHHHHHHH
T ss_pred             cEEEEecCceeeeccCccCcCCCCCCcchHh--hc-EEEECCCCCHHHHHHHHHhhhhhhcCcCCHHHHHHHHH
Confidence            588888883            4568889998  98 78999999999999999999998888887766555543

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.79  E-value=1.4e-07  Score=95.04  Aligned_cols=123  Identities=15%  Similarity=0.168  Sum_probs=91.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC------------------------cEEEEecc--ccCChHHHHHHHHhh----
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF------------------------DIYDMELA--SLRSNSDLRRLLVST----  290 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~------------------------~v~~l~~~--~~~~~~~l~~ll~~~----  290 (455)
                      +.++||+||+|+||+++|.++|+.+-+                        +++.+...  ...+-.+++++....    
T Consensus        24 ~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~id~iR~l~~~~~~~~  103 (325)
T PRK06871         24 HHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIGVDQVREINEKVSQHA  103 (325)
T ss_pred             ceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCCCCHHHHHHHHHHHhhcc
Confidence            568999999999999999999998832                        34444321  112345666655433    


Q ss_pred             --CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEE
Q 047029          291 --GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMH  368 (455)
Q Consensus       291 --~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~  368 (455)
                        ....|++||++|.+-.                ...+.||..++.    .+++.++|++|+.++.|.|.+++  |+ .+
T Consensus       104 ~~g~~KV~iI~~a~~m~~----------------~AaNaLLKtLEE----Pp~~~~fiL~t~~~~~llpTI~S--RC-~~  160 (325)
T PRK06871        104 QQGGNKVVYIQGAERLTE----------------AAANALLKTLEE----PRPNTYFLLQADLSAALLPTIYS--RC-QT  160 (325)
T ss_pred             ccCCceEEEEechhhhCH----------------HHHHHHHHHhcC----CCCCeEEEEEECChHhCchHHHh--hc-eE
Confidence              2357999999998732                456778887765    34678999999999999999999  88 67


Q ss_pred             EEeCCCCHHHHHHHHHHh
Q 047029          369 IHMSYLTPGGFKILAFNY  386 (455)
Q Consensus       369 I~~~~p~~~~~~~L~~~~  386 (455)
                      +.|+.|+.++..+.+...
T Consensus       161 ~~~~~~~~~~~~~~L~~~  178 (325)
T PRK06871        161 WLIHPPEEQQALDWLQAQ  178 (325)
T ss_pred             EeCCCCCHHHHHHHHHHH
Confidence            899999998877666543

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=98.79  E-value=3.1e-07  Score=91.46  Aligned_cols=58  Identities=19%  Similarity=0.202  Sum_probs=45.3

Q ss_pred             eEEEEEcCC------------CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhc
Q 047029          343 RIIVFTTNY------------KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIK  403 (455)
Q Consensus       343 ~ivI~TTN~------------~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~  403 (455)
                      -|||++||+            |..++..|+.  |+ ..|...+.+.++.++|++.....++..+.++.-+++.
T Consensus       321 PIii~AtNRG~~kiRGTd~~sPhGIP~DlLD--Rl-lII~t~py~~~EireIi~iRa~ee~i~l~~~Ale~L~  390 (450)
T COG1224         321 PIIILATNRGMTKIRGTDIESPHGIPLDLLD--RL-LIISTRPYSREEIREIIRIRAKEEDIELSDDALEYLT  390 (450)
T ss_pred             cEEEEEcCCceeeecccCCcCCCCCCHhhhh--he-eEEecCCCCHHHHHHHHHHhhhhhccccCHHHHHHHH
Confidence            478888884            4678889998  88 6788888888999999998888877777766555544

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.79  E-value=2.5e-08  Score=97.73  Aligned_cols=96  Identities=25%  Similarity=0.360  Sum_probs=67.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC--------hHHHHHHHHhh------CCceEEEEecccchhh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS--------NSDLRRLLVST------GNRSILVIEDIDCSIE  306 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~--------~~~l~~ll~~~------~~~~IL~iDEiD~l~~  306 (455)
                      +.++||.||.|||||.||+.+|+.|+.+|-.-|++.+..        +.-+.+++..+      ..+.|++|||||.+..
T Consensus        97 KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEAGYVGEDVENillkLlqaadydV~rAerGIIyIDEIDKIar  176 (408)
T COG1219          97 KSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVERAERGIIYIDEIDKIAR  176 (408)
T ss_pred             eccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhccccchhHHHHHHHHHHHcccCHHHHhCCeEEEechhhhhc
Confidence            568999999999999999999999999999999887731        23455666544      3579999999999854


Q ss_pred             hhhhcCCCCCCCCcchhhHhhhhhhhhccccc
Q 047029          307 LENRQCGGGYDENNSQVTLSGLLNFVDGLWSS  338 (455)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~  338 (455)
                      .  ....+-.-+-...-....||..++|...+
T Consensus       177 k--SeN~SITRDVSGEGVQQALLKiiEGTvas  206 (408)
T COG1219         177 K--SENPSITRDVSGEGVQQALLKIIEGTVAS  206 (408)
T ss_pred             c--CCCCCcccccCchHHHHHHHHHHcCceec
Confidence            1  11111111112234456688888876544

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=98.78  E-value=3.8e-08  Score=100.23  Aligned_cols=156  Identities=23%  Similarity=0.281  Sum_probs=105.6

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc---------------
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD---------------  268 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~---------------  268 (455)
                      ..|..++|++..|..|.-....             +.=.|+|+-|+.|||||++++|+|..|.--               
T Consensus        14 ~pf~aivGqd~lk~aL~l~av~-------------P~iggvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~cdP~~P   80 (423)
T COG1239          14 LPFTAIVGQDPLKLALGLNAVD-------------PQIGGALIAGEKGTAKSTLARALADLLPEIEVVIGCPFNCDPDDP   80 (423)
T ss_pred             cchhhhcCchHHHHHHhhhhcc-------------cccceeEEecCCCccHHHHHHHHHHhCCccceecCCCCCCCCCCh
Confidence            4678899999999888665331             123489999999999999999999998311               


Q ss_pred             -------------------------EEEEeccc----cCChHHHHHHHH-----------hhCCceEEEEecccchhhhh
Q 047029          269 -------------------------IYDMELAS----LRSNSDLRRLLV-----------STGNRSILVIEDIDCSIELE  308 (455)
Q Consensus       269 -------------------------v~~l~~~~----~~~~~~l~~ll~-----------~~~~~~IL~iDEiD~l~~~~  308 (455)
                                               ++.+.++.    +.+.-++.+.+.           ...++.||+|||+..|.+  
T Consensus        81 ~~~c~~c~~k~~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~d--  158 (423)
T COG1239          81 EEMCDECRAKGDELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLDD--  158 (423)
T ss_pred             hhhhHHHHhhccccccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccccH--
Confidence                                     11111111    011112333332           123578999999987743  


Q ss_pred             hhcCCCCCCCCcchhhHhhhhhhh---------hcccccCCCceEEEEEcCCC-CCCCccccCCCceeEEEEeCCC-CHH
Q 047029          309 NRQCGGGYDENNSQVTLSGLLNFV---------DGLWSSCGDERIIVFTTNYK-ERLDPALLRPGRMDMHIHMSYL-TPG  377 (455)
Q Consensus       309 ~~~~~~~~~~~~~~~~ls~LL~~l---------dg~~~~~~~~~ivI~TTN~~-~~Ld~allRpGR~d~~I~~~~p-~~~  377 (455)
                                    .....||+.+         +|+.-..+-+.++|+|+|+- ..|-|-|+.  ||..+|.+.+| +.+
T Consensus       159 --------------~lvd~LLd~aaeG~n~vereGisi~hpa~fvligTmNPEeGeLrpqLlD--Rfg~~v~~~~~~~~~  222 (423)
T COG1239         159 --------------HLVDALLDVAAEGVNDVEREGISIRHPARFLLIGTMNPEEGELRPQLLD--RFGLEVDTHYPLDLE  222 (423)
T ss_pred             --------------HHHHHHHHHHHhCCceeeeCceeeccCccEEEEeecCccccccchhhHh--hhcceeeccCCCCHH
Confidence                          3445566555         45544555678999999964 568889999  99999999876 556


Q ss_pred             HHHHHHHHhhccc
Q 047029          378 GFKILAFNYLKIK  390 (455)
Q Consensus       378 ~~~~L~~~~l~~~  390 (455)
                      ++.++..+-+...
T Consensus       223 ~rv~Ii~r~~~f~  235 (423)
T COG1239         223 ERVEIIRRRLAFE  235 (423)
T ss_pred             HHHHHHHHHHHhh
Confidence            6888888777653

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=98.77  E-value=5.8e-08  Score=103.99  Aligned_cols=156  Identities=15%  Similarity=0.178  Sum_probs=99.8

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHH-----------cCCcEEEE
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANY-----------LKFDIYDM  272 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~-----------l~~~v~~l  272 (455)
                      .+|++++|.....+++++.+..+...           ...+||+|++||||+++|+++.+.           .+.+++.+
T Consensus       216 ~~f~~iiG~S~~m~~~~~~i~~~A~s-----------~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~i  284 (538)
T PRK15424        216 YVLGDLLGQSPQMEQVRQTILLYARS-----------SAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAV  284 (538)
T ss_pred             cchhheeeCCHHHHHHHHHHHHHhCC-----------CCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEe
Confidence            57999999998888888887755443           458999999999999999999987           35799999


Q ss_pred             eccccCChHHHHHHHH-------------------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhh
Q 047029          273 ELASLRSNSDLRRLLV-------------------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVD  333 (455)
Q Consensus       273 ~~~~~~~~~~l~~ll~-------------------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ld  333 (455)
                      +|..+.. ..+...+.                   +......||||||+.+..                .....|+..++
T Consensus       285 nCaal~e-~lleseLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~----------------~~Q~kLl~~L~  347 (538)
T PRK15424        285 NCGAIAE-SLLEAELFGYEEGAFTGSRRGGRAGLFEIAHGGTLFLDEIGEMPL----------------PLQTRLLRVLE  347 (538)
T ss_pred             ecccCCh-hhHHHHhcCCccccccCccccccCCchhccCCCEEEEcChHhCCH----------------HHHHHHHhhhh
Confidence            9998743 33333221                   123457899999998743                33455666664


Q ss_pred             ccc-ccC------CCceEEEEEcCCC-C-C-----CCccccCCCcee-EEEEeCCCCH--HHHHHHHHHhhcc
Q 047029          334 GLW-SSC------GDERIIVFTTNYK-E-R-----LDPALLRPGRMD-MHIHMSYLTP--GGFKILAFNYLKI  389 (455)
Q Consensus       334 g~~-~~~------~~~~ivI~TTN~~-~-~-----Ld~allRpGR~d-~~I~~~~p~~--~~~~~L~~~~l~~  389 (455)
                      .-. ...      .-++-+|++||.. + .     +.+.|.-  |+. ..|++|+...  +....|+..|+..
T Consensus       348 e~~~~r~G~~~~~~~dvRiIaat~~~L~~~v~~g~Fr~dL~y--rL~~~~I~lPPLReR~eDI~~L~~~fl~~  418 (538)
T PRK15424        348 EKEVTRVGGHQPVPVDVRVISATHCDLEEDVRQGRFRRDLFY--RLSILRLQLPPLRERVADILPLAESFLKQ  418 (538)
T ss_pred             cCeEEecCCCceeccceEEEEecCCCHHHHHhcccchHHHHH--HhcCCeecCCChhhchhHHHHHHHHHHHH
Confidence            321 111      1234577777753 1 1     1122222  332 4455555433  3355677777754

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=98.77  E-value=5.2e-08  Score=104.26  Aligned_cols=161  Identities=19%  Similarity=0.228  Sum_probs=103.1

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~  277 (455)
                      ....+|++++|.....+.+++.+..+...           ...+||+|++||||+++|+++.+..   +.+++.++|..+
T Consensus       206 ~~~~~f~~iiG~S~~m~~~~~~i~~~A~~-----------~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l  274 (526)
T TIGR02329       206 RTRYRLDDLLGASAPMEQVRALVRLYARS-----------DATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAI  274 (526)
T ss_pred             ccccchhheeeCCHHHHHHHHHHHHHhCC-----------CCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccC
Confidence            44467999999998888888888765443           4589999999999999999999875   578999999987


Q ss_pred             CChHHHHHHHH-------------------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-c
Q 047029          278 RSNSDLRRLLV-------------------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-S  337 (455)
Q Consensus       278 ~~~~~l~~ll~-------------------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~  337 (455)
                      .. ..+...+.                   +......||||||+.+..                .....|+..++.-. .
T Consensus       275 ~e-~lleseLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~----------------~~Q~~Ll~~L~~~~~~  337 (526)
T TIGR02329       275 AE-SLLEAELFGYEEGAFTGARRGGRTGLIEAAHRGTLFLDEIGEMPL----------------PLQTRLLRVLEEREVV  337 (526)
T ss_pred             Ch-hHHHHHhcCCcccccccccccccccchhhcCCceEEecChHhCCH----------------HHHHHHHHHHhcCcEE
Confidence            43 33333221                   123457899999998743                33455666664321 1


Q ss_pred             cCC------CceEEEEEcCCC--CCCCccccCC---Ccee-EEEEeCCCCH--HHHHHHHHHhhcc
Q 047029          338 SCG------DERIIVFTTNYK--ERLDPALLRP---GRMD-MHIHMSYLTP--GGFKILAFNYLKI  389 (455)
Q Consensus       338 ~~~------~~~ivI~TTN~~--~~Ld~allRp---GR~d-~~I~~~~p~~--~~~~~L~~~~l~~  389 (455)
                      ..|      -++-+|++||..  +.+....+|+   .|+. ..|++|+...  +....|+..|+..
T Consensus       338 r~g~~~~~~~dvRiIaat~~~l~~~v~~g~fr~dL~~rL~~~~I~lPPLReR~eDI~~L~~~fl~~  403 (526)
T TIGR02329       338 RVGGTEPVPVDVRVVAATHCALTTAVQQGRFRRDLFYRLSILRIALPPLRERPGDILPLAAEYLVQ  403 (526)
T ss_pred             ecCCCceeeecceEEeccCCCHHHHhhhcchhHHHHHhcCCcEEeCCCchhchhHHHHHHHHHHHH
Confidence            111      123577777643  2222222221   1443 5667766544  3455677777654

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.76  E-value=1.5e-07  Score=94.65  Aligned_cols=122  Identities=15%  Similarity=0.208  Sum_probs=88.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC---------------------cEEEEe--cccc-------CChHHHHHHHHhh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF---------------------DIYDME--LASL-------RSNSDLRRLLVST  290 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~---------------------~v~~l~--~~~~-------~~~~~l~~ll~~~  290 (455)
                      +..+||+||+|+||+++|.++|+.+-+                     |++.++  ...-       ..-..++++....
T Consensus        26 ~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~~~I~idqIR~l~~~~  105 (319)
T PRK08769         26 GHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKL  105 (319)
T ss_pred             ceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccccccccHHHHHHHHHHH
Confidence            568999999999999999999988722                     344342  1110       1234555554433


Q ss_pred             C------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCc
Q 047029          291 G------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGR  364 (455)
Q Consensus       291 ~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR  364 (455)
                      .      ...|++||++|.+-.                ...+.||..++.-    +++.++|++|+.++.|-|.+++  |
T Consensus       106 ~~~p~~g~~kV~iI~~ae~m~~----------------~AaNaLLKtLEEP----p~~~~fiL~~~~~~~lLpTIrS--R  163 (319)
T PRK08769        106 ALTPQYGIAQVVIVDPADAINR----------------AACNALLKTLEEP----SPGRYLWLISAQPARLPATIRS--R  163 (319)
T ss_pred             hhCcccCCcEEEEeccHhhhCH----------------HHHHHHHHHhhCC----CCCCeEEEEECChhhCchHHHh--h
Confidence            2      347999999998732                4567788877653    4568899999999999999999  9


Q ss_pred             eeEEEEeCCCCHHHHHHHHHH
Q 047029          365 MDMHIHMSYLTPGGFKILAFN  385 (455)
Q Consensus       365 ~d~~I~~~~p~~~~~~~L~~~  385 (455)
                      + ..|.|+.|+.++....+..
T Consensus       164 C-q~i~~~~~~~~~~~~~L~~  183 (319)
T PRK08769        164 C-QRLEFKLPPAHEALAWLLA  183 (319)
T ss_pred             h-eEeeCCCcCHHHHHHHHHH
Confidence            8 5789999999876665553

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=98.75  E-value=2.3e-07  Score=93.28  Aligned_cols=122  Identities=16%  Similarity=0.170  Sum_probs=91.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC-----------------------CcEEEEeccc---cCChHHHHHHHHhh----
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK-----------------------FDIYDMELAS---LRSNSDLRRLLVST----  290 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~-----------------------~~v~~l~~~~---~~~~~~l~~ll~~~----  290 (455)
                      +.++||+||.|+||+++|.++|+.+-                       -|++.+....   ..+-.+++.+....    
T Consensus        25 ~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~vdqiR~l~~~~~~~~  104 (319)
T PRK06090         25 PGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSITVEQIRQCNRLAQESS  104 (319)
T ss_pred             ceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCCHHHHHHHHHHHhhCc
Confidence            56899999999999999999999872                       2455554321   12335566554332    


Q ss_pred             --CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEE
Q 047029          291 --GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMH  368 (455)
Q Consensus       291 --~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~  368 (455)
                        ....|++||++|.+-                ....+.||..++.    .+++.++|++|+.++.|-|.+++  |+ ..
T Consensus       105 ~~~~~kV~iI~~ae~m~----------------~~AaNaLLKtLEE----Pp~~t~fiL~t~~~~~lLpTI~S--RC-q~  161 (319)
T PRK06090        105 QLNGYRLFVIEPADAMN----------------ESASNALLKTLEE----PAPNCLFLLVTHNQKRLLPTIVS--RC-QQ  161 (319)
T ss_pred             ccCCceEEEecchhhhC----------------HHHHHHHHHHhcC----CCCCeEEEEEECChhhChHHHHh--cc-ee
Confidence              235799999999873                2456778888775    34678999999999999999999  98 58


Q ss_pred             EEeCCCCHHHHHHHHHH
Q 047029          369 IHMSYLTPGGFKILAFN  385 (455)
Q Consensus       369 I~~~~p~~~~~~~L~~~  385 (455)
                      +.|+.|+.++..+.+..
T Consensus       162 ~~~~~~~~~~~~~~L~~  178 (319)
T PRK06090        162 WVVTPPSTAQAMQWLKG  178 (319)
T ss_pred             EeCCCCCHHHHHHHHHH
Confidence            99999999887766654

>TIGR00368 Mg chelatase-related protein

Probab=98.73  E-value=3.3e-08  Score=105.04  Aligned_cols=142  Identities=20%  Similarity=0.209  Sum_probs=88.1

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc--EEEEeccccC---
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD--IYDMELASLR---  278 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~--v~~l~~~~~~---  278 (455)
                      ..|+++.|+..+++.+.-.+               .....++|.||||||||+++++++..+.-.  -..++...+.   
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa---------------~~g~~vlliG~pGsGKTtlar~l~~llp~~~~~~~le~~~i~s~~  253 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAA---------------AGGHNLLLFGPPGSGKTMLASRLQGILPPLTNEEAIETARIWSLV  253 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhc---------------cCCCEEEEEecCCCCHHHHHHHHhcccCCCCCcEEEeccccccch
Confidence            47889999887766543322               124579999999999999999999865210  0011111110   


Q ss_pred             ----------------------------ChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          279 ----------------------------SNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       279 ----------------------------~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                                  +....+.-......+.+|||||++.+..                ..+..|++
T Consensus       254 g~~~~~~~~~~~Pf~~p~~s~s~~~~~ggg~~~~pG~i~lA~~GvLfLDEi~e~~~----------------~~~~~L~~  317 (499)
T TIGR00368       254 GKLIDRKQIKQRPFRSPHHSASKPALVGGGPIPLPGEISLAHNGVLFLDELPEFKR----------------SVLDALRE  317 (499)
T ss_pred             hhhccccccccCCccccccccchhhhhCCccccchhhhhccCCCeEecCChhhCCH----------------HHHHHHHH
Confidence                                        0000111112233568999999997632                44555666


Q ss_pred             hhhccc---------ccCCCceEEEEEcCCC------C-----------------CCCccccCCCceeEEEEeCCCCHHH
Q 047029          331 FVDGLW---------SSCGDERIIVFTTNYK------E-----------------RLDPALLRPGRMDMHIHMSYLTPGG  378 (455)
Q Consensus       331 ~ldg~~---------~~~~~~~ivI~TTN~~------~-----------------~Ld~allRpGR~d~~I~~~~p~~~~  378 (455)
                      .|+.-.         ...+.+..+|+++|.-      +                 +|...|+.  |||+++.++.++.++
T Consensus       318 ~LE~~~v~i~r~g~~~~~pa~frlIaa~Npcpcg~~~~~~~~c~c~~~~~~~y~~~is~pllD--R~dl~~~~~~~~~~~  395 (499)
T TIGR00368       318 PIEDGSISISRASAKIFYPARFQLVAAMNPCPCGHYGGKNTHCRCSPQQISRYWNKLSGPFLD--RIDLSVEVPLLPPEK  395 (499)
T ss_pred             HHHcCcEEEEecCcceeccCCeEEEEecCCcccCcCCCCcccccCCHHHHHHHhhhccHhHHh--hCCEEEEEcCCCHHH
Confidence            664221         1112456788888852      1                 58889999  999999999887654

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.73  E-value=7.5e-08  Score=97.26  Aligned_cols=122  Identities=13%  Similarity=0.174  Sum_probs=88.1

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcC-------------------------CcEEEEeccc----------cCChHHHH
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLK-------------------------FDIYDMELAS----------LRSNSDLR  284 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~-------------------------~~v~~l~~~~----------~~~~~~l~  284 (455)
                      .+..|||+||+|+|||++|.++|+.+.                         -+++.+....          ..+-..++
T Consensus        20 ~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~iR   99 (325)
T PRK08699         20 RPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAVR   99 (325)
T ss_pred             cceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHHH
Confidence            356899999999999999999999873                         2455555421          01335566


Q ss_pred             HHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCcc
Q 047029          285 RLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPA  358 (455)
Q Consensus       285 ~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~a  358 (455)
                      .+.....      ...|++||+++.+-.                ...+.|+..++...    .+..+|++|+.++.+.+.
T Consensus       100 ~l~~~~~~~p~~~~~kV~iiEp~~~Ld~----------------~a~naLLk~LEep~----~~~~~Ilvth~~~~ll~t  159 (325)
T PRK08699        100 EIIDNVYLTSVRGGLRVILIHPAESMNL----------------QAANSLLKVLEEPP----PQVVFLLVSHAADKVLPT  159 (325)
T ss_pred             HHHHHHhhCcccCCceEEEEechhhCCH----------------HHHHHHHHHHHhCc----CCCEEEEEeCChHhChHH
Confidence            6654432      357999999998732                34556777776542    346788899999999999


Q ss_pred             ccCCCceeEEEEeCCCCHHHHHHHHH
Q 047029          359 LLRPGRMDMHIHMSYLTPGGFKILAF  384 (455)
Q Consensus       359 llRpGR~d~~I~~~~p~~~~~~~L~~  384 (455)
                      +.+  |+ .++.|+.|+.++....+.
T Consensus       160 i~S--Rc-~~~~~~~~~~~~~~~~L~  182 (325)
T PRK08699        160 IKS--RC-RKMVLPAPSHEEALAYLR  182 (325)
T ss_pred             HHH--Hh-hhhcCCCCCHHHHHHHHH
Confidence            998  88 679999999988665554

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.72  E-value=8.3e-07  Score=90.03  Aligned_cols=122  Identities=16%  Similarity=0.188  Sum_probs=91.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC------------------------cEEEEecc---ccCChHHHHHHHHhh---
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF------------------------DIYDMELA---SLRSNSDLRRLLVST---  290 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~------------------------~v~~l~~~---~~~~~~~l~~ll~~~---  290 (455)
                      +..+||+||+|+||+++|.++|+.+-+                        |++.+...   ...+-.+++++....   
T Consensus        24 ~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~  103 (334)
T PRK07993         24 HHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEKLYEH  103 (334)
T ss_pred             ceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHHHHHHHHhhc
Confidence            568999999999999999999998822                        34444322   112345666665443   


Q ss_pred             ---CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeE
Q 047029          291 ---GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDM  367 (455)
Q Consensus       291 ---~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~  367 (455)
                         ....|++||++|.+-.                ...+.||..++.    .+++.++|.+|+.++.|.|.+++  |+. 
T Consensus       104 ~~~g~~kV~iI~~ae~m~~----------------~AaNaLLKtLEE----Pp~~t~fiL~t~~~~~lLpTIrS--RCq-  160 (334)
T PRK07993        104 ARLGGAKVVWLPDAALLTD----------------AAANALLKTLEE----PPENTWFFLACREPARLLATLRS--RCR-  160 (334)
T ss_pred             cccCCceEEEEcchHhhCH----------------HHHHHHHHHhcC----CCCCeEEEEEECChhhChHHHHh--ccc-
Confidence               2457999999998732                456778888765    34678999999999999999999  885 


Q ss_pred             EEEeCCCCHHHHHHHHHH
Q 047029          368 HIHMSYLTPGGFKILAFN  385 (455)
Q Consensus       368 ~I~~~~p~~~~~~~L~~~  385 (455)
                      .+.|+.|+.++....+..
T Consensus       161 ~~~~~~~~~~~~~~~L~~  178 (334)
T PRK07993        161 LHYLAPPPEQYALTWLSR  178 (334)
T ss_pred             cccCCCCCHHHHHHHHHH
Confidence            689999998887766643

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.72  E-value=1.1e-07  Score=102.24  Aligned_cols=158  Identities=16%  Similarity=0.233  Sum_probs=99.6

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~  277 (455)
                      ....+|++++|....-+++++.+......           ...+||+|++||||+++|+++....   +.+++.++|..+
T Consensus       198 ~~~~~f~~~ig~s~~~~~~~~~~~~~A~~-----------~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~  266 (520)
T PRK10820        198 NDDSAFSQIVAVSPKMRQVVEQARKLAML-----------DAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASI  266 (520)
T ss_pred             cccccccceeECCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccC
Confidence            34568999999888878888877654332           4469999999999999999987765   468999999987


Q ss_pred             CChHHHHH-HHH-----------------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhc-cccc
Q 047029          278 RSNSDLRR-LLV-----------------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDG-LWSS  338 (455)
Q Consensus       278 ~~~~~l~~-ll~-----------------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg-~~~~  338 (455)
                      .. ..+.. +|.                 ...++..|||||||.+..                .....|++++.. ....
T Consensus       267 ~~-~~~e~elFG~~~~~~~~~~~~~~g~~e~a~~GtL~LdeI~~L~~----------------~~Q~~Ll~~l~~~~~~~  329 (520)
T PRK10820        267 PD-DVVESELFGHAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSP----------------RMQAKLLRFLNDGTFRR  329 (520)
T ss_pred             CH-HHHHHHhcCCCCCCcCCcccCCCChhhhcCCCEEEEeChhhCCH----------------HHHHHHHHHHhcCCccc
Confidence            43 23332 221                 123467899999998743                233556666643 2222


Q ss_pred             CC------CceEEEEEcCCC-------CCCCccccCCCcee-EEEEeCCCCH--HHHHHHHHHhhc
Q 047029          339 CG------DERIIVFTTNYK-------ERLDPALLRPGRMD-MHIHMSYLTP--GGFKILAFNYLK  388 (455)
Q Consensus       339 ~~------~~~ivI~TTN~~-------~~Ld~allRpGR~d-~~I~~~~p~~--~~~~~L~~~~l~  388 (455)
                      .|      .++-||+||+..       ..+.+.|..  |+. ..|++|+...  +....|+..|+.
T Consensus       330 ~g~~~~~~~~vRiI~st~~~l~~l~~~g~f~~dL~~--rL~~~~i~lPpLreR~~Di~~L~~~fl~  393 (520)
T PRK10820        330 VGEDHEVHVDVRVICATQKNLVELVQKGEFREDLYY--RLNVLTLNLPPLRDRPQDIMPLTELFVA  393 (520)
T ss_pred             CCCCcceeeeeEEEEecCCCHHHHHHcCCccHHHHh--hcCeeEEeCCCcccChhHHHHHHHHHHH
Confidence            11      234577777643       223444555  653 4556665543  234455556554

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.69  E-value=1.6e-07  Score=104.26  Aligned_cols=121  Identities=16%  Similarity=0.196  Sum_probs=84.2

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCCh
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSN  280 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~  280 (455)
                      .+|++++|.....+.+++.+..+...           ...+||+|++|||||++|+++....   +.+++.++|..+.. 
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~a~~-----------~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~-  440 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMVAQS-----------DSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPA-  440 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCCh-
Confidence            57899999999999998888865433           4589999999999999999999866   57899999987632 


Q ss_pred             HHHHHH-H-----------------HhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-ccC--
Q 047029          281 SDLRRL-L-----------------VSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-SSC--  339 (455)
Q Consensus       281 ~~l~~l-l-----------------~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~~~--  339 (455)
                      ..+... |                 .....+++||||||+.+..                .....|+..++... ...  
T Consensus       441 ~~~~~~lfg~~~~~~~g~~~~~~g~le~a~~GtL~Ldei~~L~~----------------~~Q~~L~~~l~~~~~~~~g~  504 (686)
T PRK15429        441 GLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPL----------------ELQPKLLRVLQEQEFERLGS  504 (686)
T ss_pred             hHhhhhhcCcccccccccccchhhHHHhcCCCeEEEechhhCCH----------------HHHHHHHHHHHhCCEEeCCC
Confidence            111111 1                 1233568999999998743                34456666665321 111  


Q ss_pred             ----CCceEEEEEcCCC
Q 047029          340 ----GDERIIVFTTNYK  352 (455)
Q Consensus       340 ----~~~~ivI~TTN~~  352 (455)
                          ..++-+|+||+..
T Consensus       505 ~~~~~~~~RiI~~t~~~  521 (686)
T PRK15429        505 NKIIQTDVRLIAATNRD  521 (686)
T ss_pred             CCcccceEEEEEeCCCC
Confidence                1235677888753

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.67  E-value=4.1e-08  Score=104.11  Aligned_cols=140  Identities=23%  Similarity=0.290  Sum_probs=87.8

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc--EEEEeccccC----
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD--IYDMELASLR----  278 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~--v~~l~~~~~~----  278 (455)
                      .|..+.|...+++.+.-.               ......++|+||||||||++++.++..+.-.  -..++.+.+.    
T Consensus       189 d~~~v~Gq~~~~~al~la---------------a~~G~~llliG~~GsGKTtLak~L~gllpp~~g~e~le~~~i~s~~g  253 (506)
T PRK09862        189 DLSDVIGQEQGKRGLEIT---------------AAGGHNLLLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLVN  253 (506)
T ss_pred             CeEEEECcHHHHhhhhee---------------ccCCcEEEEECCCCCcHHHHHHHHhccCCCCCCcEEEecchhhhhhc
Confidence            677777766555443211               1224579999999999999999999877311  0111211110    


Q ss_pred             -----------------ChHHHHHH----------HHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          279 -----------------SNSDLRRL----------LVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       279 -----------------~~~~l~~l----------l~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                       .......+          ........+||+||++.+-                ..++..|++.
T Consensus       254 ~~~~~~~~~~rPfr~ph~~~s~~~l~GGg~~~~pG~l~~A~gGvLfLDEi~e~~----------------~~~~~~L~~~  317 (506)
T PRK09862        254 AESVQKQWRQRPFRSPHHSASLTAMVGGGAIPGPGEISLAHNGVLFLDELPEFE----------------RRTLDALREP  317 (506)
T ss_pred             cccccCCcCCCCccCCCccchHHHHhCCCceehhhHhhhccCCEEecCCchhCC----------------HHHHHHHHHH
Confidence                             00111112          2233456899999998652                2556777777


Q ss_pred             hhc-cc--cc------CCCceEEEEEcCCCC---------------------CCCccccCCCceeEEEEeCCCCHH
Q 047029          332 VDG-LW--SS------CGDERIIVFTTNYKE---------------------RLDPALLRPGRMDMHIHMSYLTPG  377 (455)
Q Consensus       332 ldg-~~--~~------~~~~~ivI~TTN~~~---------------------~Ld~allRpGR~d~~I~~~~p~~~  377 (455)
                      |+. ..  +.      .+.+..+|+|+|...                     +|.++++.  |||+++.+++++.+
T Consensus       318 LE~g~v~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLD--RfdL~v~v~~~~~~  391 (506)
T PRK09862        318 IESGQIHLSRTRAKITYPARFQLVAAMNPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLD--RFDLSLEIPLPPPG  391 (506)
T ss_pred             HHcCcEEEecCCcceeccCCEEEEEeecCccceecCCCCCCcCHHHHHHHHhhCCHhHHh--hccEEEEeCCCCHH
Confidence            742 21  11      234578999999652                     47789999  99999999999866

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.66  E-value=4.5e-08  Score=86.47  Aligned_cols=79  Identities=29%  Similarity=0.346  Sum_probs=53.5

Q ss_pred             cCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC---cEEEEeccccCChHHHHHHH
Q 047029          211 MDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF---DIYDMELASLRSNSDLRRLL  287 (455)
Q Consensus       211 g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~---~v~~l~~~~~~~~~~l~~ll  287 (455)
                      |....-+++.+.+......           ...+||+|+|||||+++|+++....+.   +++.+++....     .+++
T Consensus         2 G~S~~~~~l~~~l~~~a~~-----------~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~-----~~~l   65 (138)
T PF14532_consen    2 GKSPAMRRLRRQLERLAKS-----------SSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP-----AELL   65 (138)
T ss_dssp             -SCHHHHHHHHHHHHHHCS-----------SS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC-----HHHH
T ss_pred             CCCHHHHHHHHHHHHHhCC-----------CCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc-----HHHH
Confidence            3444556666766654433           568999999999999999999998754   44445555433     3344


Q ss_pred             HhhCCceEEEEecccchhh
Q 047029          288 VSTGNRSILVIEDIDCSIE  306 (455)
Q Consensus       288 ~~~~~~~IL~iDEiD~l~~  306 (455)
                      .. ..+..|+|+|||.+..
T Consensus        66 ~~-a~~gtL~l~~i~~L~~   83 (138)
T PF14532_consen   66 EQ-AKGGTLYLKNIDRLSP   83 (138)
T ss_dssp             HH-CTTSEEEEECGCCS-H
T ss_pred             HH-cCCCEEEECChHHCCH
Confidence            44 3778999999999843

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=98.64  E-value=3.5e-07  Score=98.10  Aligned_cols=154  Identities=16%  Similarity=0.158  Sum_probs=99.5

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChH
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNS  281 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~  281 (455)
                      .++.++|.....+++.+.+......           +..+||+|++||||+++|+++....   +.+++.++|..+.. .
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~~-----------~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~-~  252 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAAS-----------DLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPE-S  252 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhCC-----------CCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCCh-H
Confidence            5788999999888888888764433           5589999999999999999999886   57899999998743 2


Q ss_pred             HHHH-HHH-----------------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-ccC---
Q 047029          282 DLRR-LLV-----------------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-SSC---  339 (455)
Q Consensus       282 ~l~~-ll~-----------------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~~~---  339 (455)
                      .+.. +|.                 ...++..|||||||.+..                .....|+..++... ...   
T Consensus       253 ~~e~~lfG~~~g~~~ga~~~~~g~~~~a~gGtL~ldeI~~L~~----------------~~Q~~Ll~~l~~~~~~~~g~~  316 (509)
T PRK05022        253 LAESELFGHVKGAFTGAISNRSGKFELADGGTLFLDEIGELPL----------------ALQAKLLRVLQYGEIQRVGSD  316 (509)
T ss_pred             HHHHHhcCccccccCCCcccCCcchhhcCCCEEEecChhhCCH----------------HHHHHHHHHHhcCCEeeCCCC
Confidence            2222 221                 123467899999998843                33455666664321 111   


Q ss_pred             ---CCceEEEEEcCCC-------CCCCccccCCCcee-EEEEeCCCCH--HHHHHHHHHhhc
Q 047029          340 ---GDERIIVFTTNYK-------ERLDPALLRPGRMD-MHIHMSYLTP--GGFKILAFNYLK  388 (455)
Q Consensus       340 ---~~~~ivI~TTN~~-------~~Ld~allRpGR~d-~~I~~~~p~~--~~~~~L~~~~l~  388 (455)
                         ..++-||++||..       ..+.+.|..  |+. ..|++|+...  +....|+..|+.
T Consensus       317 ~~~~~~~RiI~~t~~~l~~~~~~~~f~~dL~~--rl~~~~i~lPpLreR~eDI~~L~~~fl~  376 (509)
T PRK05022        317 RSLRVDVRVIAATNRDLREEVRAGRFRADLYH--RLSVFPLSVPPLRERGDDVLLLAGYFLE  376 (509)
T ss_pred             cceecceEEEEecCCCHHHHHHcCCccHHHHh--cccccEeeCCCchhchhhHHHHHHHHHH
Confidence               1245677777753       224444444  443 3456655433  234456666654

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=98.64  E-value=5.2e-07  Score=86.82  Aligned_cols=172  Identities=20%  Similarity=0.197  Sum_probs=93.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhC-CceEEEEecccchhhhhhhcCCCCCCCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTG-NRSILVIEDIDCSIELENRQCGGGYDEN  319 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~-~~~IL~iDEiD~l~~~~~~~~~~~~~~~  319 (455)
                      ..|-.++||+|||||.+++++|+.+|..++.++|++..+-..+.++|.... .++.+++||++.+-.            .
T Consensus        32 ~~~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~~~~l~ril~G~~~~GaW~cfdefnrl~~------------~   99 (231)
T PF12774_consen   32 NLGGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQMDYQSLSRILKGLAQSGAWLCFDEFNRLSE------------E   99 (231)
T ss_dssp             TTEEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-HHHHHHHHHHHHHHT-EEEEETCCCSSH------------H
T ss_pred             CCCCCCcCCCCCCchhHHHHHHHHhCCeEEEecccccccHHHHHHHHHHHhhcCchhhhhhhhhhhH------------H
Confidence            567889999999999999999999999999999999888899999997664 589999999998732            1


Q ss_pred             cchhhHhhhhhhh-hccccc------------CCCceEEEEEcCC----CCCCCccccCCCceeEEEEeCCCCHHHHHHH
Q 047029          320 NSQVTLSGLLNFV-DGLWSS------------CGDERIIVFTTNY----KERLDPALLRPGRMDMHIHMSYLTPGGFKIL  382 (455)
Q Consensus       320 ~~~~~ls~LL~~l-dg~~~~------------~~~~~ivI~TTN~----~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L  382 (455)
                      . -..+++.+..+ +.+...            ...+.-+++|.|+    ...|++.|..  -| +.|.|..||.....++
T Consensus       100 v-LS~i~~~i~~i~~al~~~~~~~~~~g~~i~l~~~~~iFiT~np~y~gr~~LP~nLk~--lF-Rpvam~~PD~~~I~ei  175 (231)
T PF12774_consen  100 V-LSVISQQIQSIQDALRAKQKSFTLEGQEIKLNPNCGIFITMNPGYAGRSELPENLKA--LF-RPVAMMVPDLSLIAEI  175 (231)
T ss_dssp             H-HHHHHHHHHHHHHHHHCTSSEEEETTCEEE--TT-EEEEEE-B-CCCC--S-HHHCT--TE-EEEE--S--HHHHHHH
T ss_pred             H-HHHHHHHHHHHHHhhcccccccccCCCEEEEccceeEEEeeccccCCcccCCHhHHH--Hh-heeEEeCCCHHHHHHH
Confidence            1 11111111111 111110            0122335567773    3567777765  44 7899999998876655


Q ss_pred             HHHhhcccC-CCchHHHHHhhccccCchhHHHh-ccCCHHHHHHHHHHHHHHh
Q 047029          383 AFNYLKIKS-HSMFDEIEELIKEVEVTPAEEFM-KSEDADVALNGLVDFLLRK  433 (455)
Q Consensus       383 ~~~~l~~~~-~~l~~ei~~ll~~~~~tpa~~l~-~~~~~~~al~~l~~~l~~~  433 (455)
                      .-...+..+ ..+...+..+.+     -+..++ +...-|-.|+.+...|...
T Consensus       176 ~L~s~GF~~a~~La~kl~~l~~-----l~~~~lS~q~hydfgLRalk~vl~~a  223 (231)
T PF12774_consen  176 LLLSQGFKDAKSLAKKLVSLFQ-----LCKEQLSKQDHYDFGLRALKSVLRMA  223 (231)
T ss_dssp             HHHCCCTSSHHHHHHHHHHHHH-----HHHHCS-SSTT---SHHHHHHHHHHH
T ss_pred             HHHHcCchhHHHHHHHHHHHHH-----HHHHhhccCccccccHHHHHHHHHHH
Confidence            544444322 122233333221     112222 4455555555555555443

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

Probab=98.64  E-value=4e-08  Score=83.12  Aligned_cols=61  Identities=25%  Similarity=0.396  Sum_probs=40.1

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccch
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCS  304 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l  304 (455)
                      |.||||||+|||++++.+|..+.-.+-......+-....-.+.+.......++++||+...
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~~~~~~~~w~gY~~q~vvi~DD~~~~   61 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYTRNPGDKFWDGYQGQPVVIIDDFGQD   61 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEeCCCccchhhccCCCcEEEEeecCcc
Confidence            5799999999999999999888533211111111111222345566667789999999865

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

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.62  E-value=1.5e-07  Score=95.67  Aligned_cols=130  Identities=22%  Similarity=0.324  Sum_probs=83.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC--------hHHHHHHHHhh------CCceEEEEecccchhh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS--------NSDLRRLLVST------GNRSILVIEDIDCSIE  306 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~--------~~~l~~ll~~~------~~~~IL~iDEiD~l~~  306 (455)
                      +.++||.||.|+|||.|++-+|+.++.+|...||+.+..        ++-+.+++..+      .+..|+||||+|.+..
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~  305 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITK  305 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhcc
Confidence            568999999999999999999999999999999998732        35567777555      3578999999999852


Q ss_pred             hhhhcCCCCCCCCcchhhHhhhhhhhhccccc---------CCCceEEEEEcCCC-------CCCCccccCCCcee-EEE
Q 047029          307 LENRQCGGGYDENNSQVTLSGLLNFVDGLWSS---------CGDERIIVFTTNYK-------ERLDPALLRPGRMD-MHI  369 (455)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~---------~~~~~ivI~TTN~~-------~~Ld~allRpGR~d-~~I  369 (455)
                      ....-...  -+-...-....||..++|..-+         ..++.+.|=|||-.       -.||.-+-|  |++ ..+
T Consensus       306 ~~~~i~~~--RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnILFiasGAF~~Ldk~I~r--R~~d~sl  381 (564)
T KOG0745|consen  306 KAESIHTS--RDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNILFIASGAFVGLDKIISR--RLDDKSL  381 (564)
T ss_pred             cCcccccc--ccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceEEEecccccchHHHHHH--hhcchhc
Confidence            11110000  0112233455677777764322         12345555555532       345555555  543 445


Q ss_pred             EeCCC
Q 047029          370 HMSYL  374 (455)
Q Consensus       370 ~~~~p  374 (455)
                      -|+.|
T Consensus       382 GFg~~  386 (564)
T KOG0745|consen  382 GFGAP  386 (564)
T ss_pred             ccCCC
Confidence            56666

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.60  E-value=1.1e-07  Score=97.45  Aligned_cols=159  Identities=18%  Similarity=0.178  Sum_probs=105.4

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEeccccC
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMELASLR  278 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~~~~~  278 (455)
                      ...+++++|....-+++++.++.+-           +....+|++|++||||+.+|++|....    ..+++.++|+.+.
T Consensus        74 ~~~~~~LIG~~~~~~~~~eqik~~a-----------p~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~  142 (403)
T COG1221          74 SEALDDLIGESPSLQELREQIKAYA-----------PSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYS  142 (403)
T ss_pred             chhhhhhhccCHHHHHHHHHHHhhC-----------CCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhC
Confidence            3468899999988888888887521           114579999999999999999998543    5689999999987


Q ss_pred             ChHHHHHHHHh-----------------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhc-ccc---
Q 047029          279 SNSDLRRLLVS-----------------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDG-LWS---  337 (455)
Q Consensus       279 ~~~~l~~ll~~-----------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg-~~~---  337 (455)
                      .+-...++|--                 ..+..+||+|||..+..                ...-.|+.+||. .+.   
T Consensus       143 en~~~~eLFG~~kGaftGa~~~k~Glfe~A~GGtLfLDEI~~LP~----------------~~Q~kLl~~le~g~~~rvG  206 (403)
T COG1221         143 ENLQEAELFGHEKGAFTGAQGGKAGLFEQANGGTLFLDEIHRLPP----------------EGQEKLLRVLEEGEYRRVG  206 (403)
T ss_pred             cCHHHHHHhccccceeecccCCcCchheecCCCEEehhhhhhCCH----------------hHHHHHHHHHHcCceEecC
Confidence            66655555521                 12457999999998854                223346666663 222   


Q ss_pred             ---cCCCceEEEEEcCC-C-CCCCc--cccCCCceeEEEEeCCCCHH--HHHHHHHHhhcc
Q 047029          338 ---SCGDERIIVFTTNY-K-ERLDP--ALLRPGRMDMHIHMSYLTPG--GFKILAFNYLKI  389 (455)
Q Consensus       338 ---~~~~~~ivI~TTN~-~-~~Ld~--allRpGR~d~~I~~~~p~~~--~~~~L~~~~l~~  389 (455)
                         ....++.+|++||- + +.+-.  .+.| -|+.+.|++|+..+.  ++..|+..|+..
T Consensus       207 ~~~~~~~dVRli~AT~~~l~~~~~~g~dl~~-rl~~~~I~LPpLrER~~Di~~L~e~Fl~~  266 (403)
T COG1221         207 GSQPRPVDVRLICATTEDLEEAVLAGADLTR-RLNILTITLPPLRERKEDILLLAEHFLKS  266 (403)
T ss_pred             CCCCcCCCceeeeccccCHHHHHHhhcchhh-hhcCceecCCChhhchhhHHHHHHHHHHH
Confidence               12245677777763 2 22222  3332 166677777766543  355677777754

>PF13173 AAA_14: AAA domain

Probab=98.60  E-value=2.4e-07  Score=80.75  Aligned_cols=116  Identities=22%  Similarity=0.291  Sum_probs=71.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC--CcEEEEeccccCChH----HHHHHHHhh--CCceEEEEecccchhhhhhhcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK--FDIYDMELASLRSNS----DLRRLLVST--GNRSILVIEDIDCSIELENRQC  312 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~--~~v~~l~~~~~~~~~----~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~  312 (455)
                      .+.++|+||.|||||++++.+++.+.  .++..+++.+.....    ++.+.+.+.  ..+.+||||||..+..      
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iDEiq~~~~------   75 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPDLLEYFLELIKPGKKYIFIDEIQYLPD------   75 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhhhHHHHHHhhccCCcEEEEehhhhhcc------
Confidence            35789999999999999999999886  788888877653211    133444333  3578999999997621      


Q ss_pred             CCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCC--ccccCCCceeEEEEeCCCCHHHH
Q 047029          313 GGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLD--PALLRPGRMDMHIHMSYLTPGGF  379 (455)
Q Consensus       313 ~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld--~allRpGR~d~~I~~~~p~~~~~  379 (455)
                              ....+..+.+   ..     .+.-||+|+.....+.  -+-.=+||.. .+++.+.+..++
T Consensus        76 --------~~~~lk~l~d---~~-----~~~~ii~tgS~~~~l~~~~~~~l~gr~~-~~~l~Plsf~E~  127 (128)
T PF13173_consen   76 --------WEDALKFLVD---NG-----PNIKIILTGSSSSLLSKDIAESLAGRVI-EIELYPLSFREF  127 (128)
T ss_pred             --------HHHHHHHHHH---hc-----cCceEEEEccchHHHhhcccccCCCeEE-EEEECCCCHHHh
Confidence                    2222333333   11     2333444443322221  1222346884 799999888774

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=98.58  E-value=2.4e-07  Score=103.13  Aligned_cols=130  Identities=18%  Similarity=0.229  Sum_probs=82.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCc-------EEEEeccccCC-h----HH--HHHHHHhhCCceEEEEecccchhh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFD-------IYDMELASLRS-N----SD--LRRLLVSTGNRSILVIEDIDCSIE  306 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~-------v~~l~~~~~~~-~----~~--l~~ll~~~~~~~IL~iDEiD~l~~  306 (455)
                      .-.+||.|+||||||.+++++++.....       ...+.++.... .    ..  +..-........+++|||+|.+..
T Consensus       492 dihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~vgLTa~~~~~d~~tG~~~le~GaLvlAdgGtL~IDEidkms~  571 (915)
T PTZ00111        492 IINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSVGLTASIKFNESDNGRAMIQPGAVVLANGGVCCIDELDKCHN  571 (915)
T ss_pred             CceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccccccchhhhcccccCcccccCCcEEEcCCCeEEecchhhCCH
Confidence            3479999999999999999999876433       23333332110 0    00  000001123467999999998742


Q ss_pred             hhhhcCCCCCCCCcchhhHhhhhhhhhcc---------cccCCCceEEEEEcCCCC-------------CCCccccCCCc
Q 047029          307 LENRQCGGGYDENNSQVTLSGLLNFVDGL---------WSSCGDERIIVFTTNYKE-------------RLDPALLRPGR  364 (455)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~ls~LL~~ldg~---------~~~~~~~~ivI~TTN~~~-------------~Ld~allRpGR  364 (455)
                                      .....|++.|+.-         ...-.....||+|+|+.+             .|+++|+.  |
T Consensus       572 ----------------~~Q~aLlEaMEqqtIsI~KaGi~~tL~ar~rVIAAaNP~~gryd~~~s~~eni~Lp~~LLS--R  633 (915)
T PTZ00111        572 ----------------ESRLSLYEVMEQQTVTIAKAGIVATLKAETAILASCNPINSRYNKNKAVIENINISPSLFT--R  633 (915)
T ss_pred             ----------------HHHHHHHHHHhCCEEEEecCCcceecCCCeEEEEEcCCcccccCcccCcccccCCChHHhh--h
Confidence                            3445667776532         122234578999999852             37799999  9


Q ss_pred             eeEEE-EeCCCCHHHHHHHHHHhhc
Q 047029          365 MDMHI-HMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       365 ~d~~I-~~~~p~~~~~~~L~~~~l~  388 (455)
                      ||+.. -++.|+.+.=+.|+.+.+.
T Consensus       634 FDLIf~l~D~~d~~~D~~lA~hI~~  658 (915)
T PTZ00111        634 FDLIYLVLDHIDQDTDQLISLSIAK  658 (915)
T ss_pred             hcEEEEecCCCChHHHHHHHHHHHH
Confidence            98764 5688888876677666553

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.56  E-value=5e-07  Score=93.78  Aligned_cols=135  Identities=24%  Similarity=0.317  Sum_probs=89.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEecc-cc------CChHHHHHHHHhhC--CceEEEEecccchhhhhhhcC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELA-SL------RSNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQC  312 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~-~~------~~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~  312 (455)
                      ..+||+||||+|||+||.-+|...+++++.+-.. +.      ..-..+.+.|.++.  .-+||++|||+.+++...-  
T Consensus       539 vSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdiErLiD~vpI--  616 (744)
T KOG0741|consen  539 VSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDIERLLDYVPI--  616 (744)
T ss_pred             eEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcchhhhhccccc--
Confidence            4699999999999999999999999999976432 22      11245667776653  3589999999998752111  


Q ss_pred             CCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCc-cccCCCceeEEEEeCCCCH-HHHHHHHHH
Q 047029          313 GGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDP-ALLRPGRMDMHIHMSYLTP-GGFKILAFN  385 (455)
Q Consensus       313 ~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~-allRpGR~d~~I~~~~p~~-~~~~~L~~~  385 (455)
                          +..-+..++..|+-.+.... ..|...+|++||...+.|.+ .++.  .|+..|++|..+. ++...++..
T Consensus       617 ----GPRfSN~vlQaL~VllK~~p-pkg~kLli~~TTS~~~vL~~m~i~~--~F~~~i~Vpnl~~~~~~~~vl~~  684 (744)
T KOG0741|consen  617 ----GPRFSNLVLQALLVLLKKQP-PKGRKLLIFGTTSRREVLQEMGILD--CFSSTIHVPNLTTGEQLLEVLEE  684 (744)
T ss_pred             ----CchhhHHHHHHHHHHhccCC-CCCceEEEEecccHHHHHHHcCHHH--hhhheeecCccCchHHHHHHHHH
Confidence                12234455566666655443 23334556667766554432 3445  8889999998776 555555553

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=98.55  E-value=9.1e-07  Score=92.73  Aligned_cols=125  Identities=21%  Similarity=0.216  Sum_probs=88.8

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccc
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELAS  276 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~  276 (455)
                      +.+..+|++++|....-.++++.++.+-..           +-.+||.|.+||||..+|+++.+..   +-+|+.++|..
T Consensus       238 ~~a~y~f~~Iig~S~~m~~~~~~akr~A~t-----------dstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaA  306 (560)
T COG3829         238 LKAKYTFDDIIGESPAMLRVLELAKRIAKT-----------DSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAA  306 (560)
T ss_pred             cccccchhhhccCCHHHHHHHHHHHhhcCC-----------CCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEeccc
Confidence            567789999999888887777776644332           5689999999999999999999987   67999999998


Q ss_pred             cCChHHHHHHHHh-------------------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhh----
Q 047029          277 LRSNSDLRRLLVS-------------------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVD----  333 (455)
Q Consensus       277 ~~~~~~l~~ll~~-------------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ld----  333 (455)
                      +- +.-+..-|..                   ..+..-||+|||..+..                .....||..+.    
T Consensus       307 iP-e~LlESELFGye~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl----------------~LQaKLLRVLQEkei  369 (560)
T COG3829         307 IP-ETLLESELFGYEKGAFTGASKGGKPGLFELANGGTLFLDEIGEMPL----------------PLQAKLLRVLQEKEI  369 (560)
T ss_pred             CC-HHHHHHHHhCcCCccccccccCCCCcceeeccCCeEEehhhccCCH----------------HHHHHHHHHHhhceE
Confidence            62 2223332322                   23456899999997632                34556666654    


Q ss_pred             ---cccccCCCceEEEEEcCCC
Q 047029          334 ---GLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       334 ---g~~~~~~~~~ivI~TTN~~  352 (455)
                         |-....+-++-||+|||..
T Consensus       370 ~rvG~t~~~~vDVRIIAATN~n  391 (560)
T COG3829         370 ERVGGTKPIPVDVRIIAATNRN  391 (560)
T ss_pred             EecCCCCceeeEEEEEeccCcC
Confidence               2222223457799999963

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.55  E-value=1.4e-06  Score=86.27  Aligned_cols=69  Identities=17%  Similarity=0.244  Sum_probs=48.6

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhh-cCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRV-GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS  276 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~-g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~  276 (455)
                      .++|+.+.|+.+-=.|..-.++.+.-..+ .--.|+++|..||.|+|||-+|+.+|+..+.+|+.+..+.
T Consensus        16 yIIGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVEATK   85 (444)
T COG1220          16 YIIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATK   85 (444)
T ss_pred             HhcCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCeEEEEeee
Confidence            36788888887755554333222211111 1123789999999999999999999999999999887643

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.55  E-value=9.3e-08  Score=98.78  Aligned_cols=48  Identities=31%  Similarity=0.427  Sum_probs=40.4

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ...|.|+.|++..|+.+.-...               -..|+|++||||||||++|+-+...|
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAAA---------------GgHnLl~~GpPGtGKTmla~Rl~~lL  222 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAAA---------------GGHNLLLVGPPGTGKTMLASRLPGLL  222 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHHh---------------cCCcEEEecCCCCchHHhhhhhcccC
Confidence            4579999999999998865443               15689999999999999999998766

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.54  E-value=1.2e-06  Score=84.62  Aligned_cols=164  Identities=18%  Similarity=0.220  Sum_probs=111.6

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-CCcEEE--------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-KFDIYD--------  271 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-~~~v~~--------  271 (455)
                      -.|.+|+.+....+....+.....    .       + . =..+|+|||+|+||-|.+.++-+++ |..+..        
T Consensus         7 yrpksl~~l~~~~e~~~~Lksl~~----~-------~-d-~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~   73 (351)
T KOG2035|consen    7 YRPKSLDELIYHEELANLLKSLSS----T-------G-D-FPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTF   73 (351)
T ss_pred             cCcchhhhcccHHHHHHHHHHhcc----c-------C-C-CCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEE
Confidence            347788888877776666544322    0       0 0 1379999999999999999999987 322111        


Q ss_pred             --------------------EeccccC--ChHHHHHHHHhhC-----------CceEEEEecccchhhhhhhcCCCCCCC
Q 047029          272 --------------------MELASLR--SNSDLRRLLVSTG-----------NRSILVIEDIDCSIELENRQCGGGYDE  318 (455)
Q Consensus       272 --------------------l~~~~~~--~~~~l~~ll~~~~-----------~~~IL~iDEiD~l~~~~~~~~~~~~~~  318 (455)
                                          ++.++.+  +.--+++++.+..           .-.+++|-|+|.+..            
T Consensus        74 ~tpS~kklEistvsS~yHlEitPSDaG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~LT~------------  141 (351)
T KOG2035|consen   74 TTPSKKKLEISTVSSNYHLEITPSDAGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADELTR------------  141 (351)
T ss_pred             ecCCCceEEEEEecccceEEeChhhcCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhhhH------------
Confidence                                1111111  1123455554442           126999999998742            


Q ss_pred             CcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHH
Q 047029          319 NNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEI  398 (455)
Q Consensus       319 ~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei  398 (455)
                          .....|-..|+...++    .-+|+.+|....+-+++.+  |+ ..|.++.|+.++...++.+.+..++..+..++
T Consensus       142 ----dAQ~aLRRTMEkYs~~----~RlIl~cns~SriIepIrS--RC-l~iRvpaps~eeI~~vl~~v~~kE~l~lp~~~  210 (351)
T KOG2035|consen  142 ----DAQHALRRTMEKYSSN----CRLILVCNSTSRIIEPIRS--RC-LFIRVPAPSDEEITSVLSKVLKKEGLQLPKEL  210 (351)
T ss_pred             ----HHHHHHHHHHHHHhcC----ceEEEEecCcccchhHHhh--he-eEEeCCCCCHHHHHHHHHHHHHHhcccCcHHH
Confidence                3345566666665444    4477889999999999998  88 67999999999999999999988877666554


Q ss_pred             HH
Q 047029          399 EE  400 (455)
Q Consensus       399 ~~  400 (455)
                      ..
T Consensus       211 l~  212 (351)
T KOG2035|consen  211 LK  212 (351)
T ss_pred             HH
Confidence            43

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=98.52  E-value=1.9e-06  Score=83.83  Aligned_cols=58  Identities=17%  Similarity=0.288  Sum_probs=39.8

Q ss_pred             eEEEEEcCC-------------CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhc
Q 047029          343 RIIVFTTNY-------------KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIK  403 (455)
Q Consensus       343 ~ivI~TTN~-------------~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~  403 (455)
                      -+|||+||+             |..+++.|+.  |+ +.|..-..+.++.++|++.....+...+.++.-.++.
T Consensus       326 PivifAsNrG~~~irGt~d~~sPhGip~dllD--Rl-~Iirt~~y~~~e~r~Ii~~Ra~~E~l~~~e~a~~~l~  396 (456)
T KOG1942|consen  326 PIVIFASNRGMCTIRGTEDILSPHGIPPDLLD--RL-LIIRTLPYDEEEIRQIIKIRAQVEGLQVEEEALDLLA  396 (456)
T ss_pred             ceEEEecCCcceeecCCcCCCCCCCCCHHHhh--he-eEEeeccCCHHHHHHHHHHHHhhhcceecHHHHHHHH
Confidence            478888874             3567888888  88 5565555566777778887777776666655544443

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=98.52  E-value=1.2e-07  Score=96.95  Aligned_cols=97  Identities=19%  Similarity=0.375  Sum_probs=61.0

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHcCC------cEEEE--ec----cccC-ChHHHHHHHHhhCCc-eEEEEeccc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKF------DIYDM--EL----ASLR-SNSDLRRLLVSTGNR-SILVIEDID  302 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l~~------~v~~l--~~----~~~~-~~~~l~~ll~~~~~~-~IL~iDEiD  302 (455)
                      ..+.++|++||||+|+|||+|+-...+.+..      ++...  +.    ..+. ....+..+.....+. .||+|||+.
T Consensus        58 ~~~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~vh~~l~~~~~~~~~l~~va~~l~~~~~lLcfDEF~  137 (362)
T PF03969_consen   58 PPPPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLRGQDDPLPQVADELAKESRLLCFDEFQ  137 (362)
T ss_pred             cCCCCceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHhCCCccHHHHHHHHHhcCCEEEEeeee
Confidence            3567899999999999999999999988843      11111  00    0001 122233333344443 499999997


Q ss_pred             chhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          303 CSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       303 ~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                      .-             +......+..|++.+   +.   .++++|+|+|++
T Consensus       138 V~-------------DiaDAmil~rLf~~l---~~---~gvvlVaTSN~~  168 (362)
T PF03969_consen  138 VT-------------DIADAMILKRLFEAL---FK---RGVVLVATSNRP  168 (362)
T ss_pred             cc-------------chhHHHHHHHHHHHH---HH---CCCEEEecCCCC
Confidence            52             222345666677654   32   468999999953

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=98.50  E-value=4.5e-07  Score=89.24  Aligned_cols=159  Identities=18%  Similarity=0.190  Sum_probs=101.9

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc------EEEEe
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD------IYDME  273 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~------v~~l~  273 (455)
                      =..|..++++++..++-..+.+.           .  +.+.-...|+|||||||||+.+.|.|+.+-.+      +..++
T Consensus        34 kyrP~~l~dv~~~~ei~st~~~~-----------~--~~~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~leln  100 (360)
T KOG0990|consen   34 KYRPPFLGIVIKQEPIWSTENRY-----------S--GMPGLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELN  100 (360)
T ss_pred             CCCCchhhhHhcCCchhhHHHHh-----------c--cCCCCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhh
Confidence            35677888888877665544432           1  22222289999999999999999999988432      22333


Q ss_pred             ccccCCh---HHHHHHHHhhC---------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCC
Q 047029          274 LASLRSN---SDLRRLLVSTG---------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGD  341 (455)
Q Consensus       274 ~~~~~~~---~~l~~ll~~~~---------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~  341 (455)
                      .++-.+-   ..-.+.|..+.         ....+++||.|+...                ...+.|-..+....    .
T Consensus       101 aSd~rgid~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~----------------~AQnALRRviek~t----~  160 (360)
T KOG0990|consen  101 ASDDRGIDPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTR----------------DAQNALRRVIEKYT----A  160 (360)
T ss_pred             ccCccCCcchHHHHHHHHhhccceeccccCceeEEEecchhHhhH----------------HHHHHHHHHHHHhc----c
Confidence            4332221   22223343333         457999999998743                22333333444432    3


Q ss_pred             ceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc
Q 047029          342 ERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM  394 (455)
Q Consensus       342 ~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l  394 (455)
                      +.-++.-+|++..+.|++..  ||. ...+...+..+-.....+.+..+....
T Consensus       161 n~rF~ii~n~~~ki~pa~qs--Rct-rfrf~pl~~~~~~~r~shi~e~e~~~~  210 (360)
T KOG0990|consen  161 NTRFATISNPPQKIHPAQQS--RCT-RFRFAPLTMAQQTERQSHIRESEQKET  210 (360)
T ss_pred             ceEEEEeccChhhcCchhhc--ccc-cCCCCCCChhhhhhHHHHHHhcchhhc
Confidence            45566789999999999998  884 577777777777777777776654433

>PHA02624 large T antigen; Provisional

Probab=98.50  E-value=6.6e-07  Score=95.49  Aligned_cols=125  Identities=17%  Similarity=0.172  Sum_probs=79.3

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCC
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGY  316 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~  316 (455)
                      |++.++.++||||||||||+++.+|++.++..+..++.+.-    .+.--|.-.....+.+|||+-.-.-...     .-
T Consensus       427 giPKk~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVNsPt~----ks~FwL~pl~D~~~~l~dD~t~~~~~~~-----~L  497 (647)
T PHA02624        427 NVPKRRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPPD----KLNFELGCAIDQFMVVFEDVKGQPADNK-----DL  497 (647)
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEEEeeCCcc----hhHHHhhhhhhceEEEeeeccccccccc-----cC
Confidence            67788899999999999999999999999666666654332    2333334444567999999963211000     00


Q ss_pred             CCCcchhhHhhhhhhhhcccccCC-----Cc-----eEEEEEcCCCCCCCccccCCCceeEEEEeCC
Q 047029          317 DENNSQVTLSGLLNFVDGLWSSCG-----DE-----RIIVFTTNYKERLDPALLRPGRMDMHIHMSY  373 (455)
Q Consensus       317 ~~~~~~~~ls~LL~~ldg~~~~~~-----~~-----~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~  373 (455)
                      ..+..-..+..|-|.+||-..-+=     ..     --.|.|||. ..|+..+.-  ||..++.|..
T Consensus       498 p~G~~~dNl~~lRn~LDG~V~v~ld~KH~n~~q~~~PPlliT~Ne-y~iP~T~~~--Rf~~~~~F~~  561 (647)
T PHA02624        498 PSGQGMNNLDNLRDYLDGSVPVNLEKKHLNKRSQIFPPGIVTMNE-YLIPQTVKA--RFAKVLDFKP  561 (647)
T ss_pred             CcccccchhhHHHhhcCCCCccccchhccCchhccCCCeEEeecC-cccchhHHH--HHHHhccccc
Confidence            011222234668889998721110     00     136778886 346777777  8988888754

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

Probab=98.49  E-value=5e-06  Score=81.21  Aligned_cols=128  Identities=21%  Similarity=0.279  Sum_probs=72.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCC-cEEEEec--cccC-----------------C--h----HHHHHHHH---hhCCc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKF-DIYDMEL--ASLR-----------------S--N----SDLRRLLV---STGNR  293 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~-~v~~l~~--~~~~-----------------~--~----~~l~~ll~---~~~~~  293 (455)
                      .++|+||+|+|||++++.+++.+.. .+.....  ....                 .  .    ..+...+.   ....+
T Consensus        45 ~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~~~~~~  124 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQFAAGKR  124 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHhCCCC
Confidence            5889999999999999999999863 2222111  0010                 0  0    11222121   12356


Q ss_pred             eEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCC--CCCCC----ccccCCCceeE
Q 047029          294 SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY--KERLD----PALLRPGRMDM  367 (455)
Q Consensus       294 ~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~--~~~Ld----~allRpGR~d~  367 (455)
                      .+|+|||++.+..             .....+..+.+...    ..+..+.||++...  .+.+.    ..+.+  |+..
T Consensus       125 ~vliiDe~~~l~~-------------~~~~~l~~l~~~~~----~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~--r~~~  185 (269)
T TIGR03015       125 ALLVVDEAQNLTP-------------ELLEELRMLSNFQT----DNAKLLQIFLVGQPEFRETLQSPQLQQLRQ--RIIA  185 (269)
T ss_pred             eEEEEECcccCCH-------------HHHHHHHHHhCccc----CCCCeEEEEEcCCHHHHHHHcCchhHHHHh--heee
Confidence            8999999997632             11122223333211    11122333443321  11221    23555  8888


Q ss_pred             EEEeCCCCHHHHHHHHHHhhcc
Q 047029          368 HIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       368 ~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      .++++..+.++...++...+..
T Consensus       186 ~~~l~~l~~~e~~~~l~~~l~~  207 (269)
T TIGR03015       186 SCHLGPLDREETREYIEHRLER  207 (269)
T ss_pred             eeeCCCCCHHHHHHHHHHHHHH
Confidence            9999999999999988887754

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.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=98.46  E-value=2e-06  Score=93.85  Aligned_cols=50  Identities=32%  Similarity=0.399  Sum_probs=40.3

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD  268 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~  268 (455)
                      .-|++++|+++.++.+...+..               +++++|+||||||||++++++|+.++..
T Consensus        15 ~~~~~viG~~~a~~~l~~a~~~---------------~~~~ll~G~pG~GKT~la~~la~~l~~~   64 (608)
T TIGR00764        15 RLIDQVIGQEEAVEIIKKAAKQ---------------KRNVLLIGEPGVGKSMLAKAMAELLPDE   64 (608)
T ss_pred             hhHhhccCHHHHHHHHHHHHHc---------------CCCEEEECCCCCCHHHHHHHHHHHcCch
Confidence            4578889988887766555431               3589999999999999999999999654

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>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=98.45  E-value=1.2e-06  Score=82.80  Aligned_cols=152  Identities=26%  Similarity=0.354  Sum_probs=77.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCc---EEEEeccccCC--------------------------------------
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFD---IYDMELASLRS--------------------------------------  279 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~---v~~l~~~~~~~--------------------------------------  279 (455)
                      .+.++||||.|+|||+|++.+.+.+.-.   .+.++......                                      
T Consensus        20 ~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~   99 (234)
T PF01637_consen   20 SQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRSFIEETSLADELSEALGISIPSITLEKISKDLS   99 (234)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHHHHHHHHHHCHCHHHHHHHCCTSTTEEEECTS-
T ss_pred             CcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHHHHHHHHHHHHHHHHHhhhcccccchhhhhcch
Confidence            5689999999999999999999998321   11111100000                                      


Q ss_pred             ---hHHHHHHHHh---hCCceEEEEecccchh-hhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEE-EcCC
Q 047029          280 ---NSDLRRLLVS---TGNRSILVIEDIDCSI-ELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVF-TTNY  351 (455)
Q Consensus       280 ---~~~l~~ll~~---~~~~~IL~iDEiD~l~-~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~-TTN~  351 (455)
                         ...+..++..   ...+.||+|||++.+. .           .......+..|.+.++.....  .++.+|+ +++.
T Consensus       100 ~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~-----------~~~~~~~~~~l~~~~~~~~~~--~~~~~v~~~S~~  166 (234)
T PF01637_consen  100 EDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIA-----------SEEDKDFLKSLRSLLDSLLSQ--QNVSIVITGSSD  166 (234)
T ss_dssp             GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBC-----------TTTTHHHHHHHHHHHHH------TTEEEEEEESSH
T ss_pred             hhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhc-----------ccchHHHHHHHHHHHhhcccc--CCceEEEECCch
Confidence               1112222222   1234899999999885 2           012234556677777764333  3344444 4431


Q ss_pred             ---CC--CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCC---chHHHHHhhccccCch
Q 047029          352 ---KE--RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHS---MFDEIEELIKEVEVTP  409 (455)
Q Consensus       352 ---~~--~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~---l~~ei~~ll~~~~~tp  409 (455)
                         .+  .-...+..  |+.. +.+++.+.++..+++...+... ..   -.++++.+..-..-.|
T Consensus       167 ~~~~~~~~~~~~~~~--~~~~-~~l~~l~~~e~~~~~~~~~~~~-~~~~~~~~~~~~i~~~~gG~P  228 (234)
T PF01637_consen  167 SLMEEFLDDKSPLFG--RFSH-IELKPLSKEEAREFLKELFKEL-IKLPFSDEDIEEIYSLTGGNP  228 (234)
T ss_dssp             HHHHHTT-TTSTTTT-----E-EEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-H
T ss_pred             HHHHHhhcccCcccc--ccce-EEEeeCCHHHHHHHHHHHHHHh-hcccCCHHHHHHHHHHhCCCH
Confidence               11  12233334  8876 9999999999999999876544 22   2345555544333333

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

>PF05729 NACHT: NACHT domain

Probab=98.43  E-value=2e-06  Score=76.94  Aligned_cols=131  Identities=19%  Similarity=0.288  Sum_probs=71.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCC---------cEEEEeccccCCh---HHHHHHH------------------HhhC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKF---------DIYDMELASLRSN---SDLRRLL------------------VSTG  291 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~---------~v~~l~~~~~~~~---~~l~~ll------------------~~~~  291 (455)
                      |-++|+|+||+|||++++.++..+..         -++.+.+......   ..+...+                  ....
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   80 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKN   80 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcC
Confidence            35799999999999999999987711         1223333332211   1222222                  1224


Q ss_pred             CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhh-hhhhhhcccccCCCceEEEEEcCCCCC--CCccccCCCceeEE
Q 047029          292 NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSG-LLNFVDGLWSSCGDERIIVFTTNYKER--LDPALLRPGRMDMH  368 (455)
Q Consensus       292 ~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~-LL~~ldg~~~~~~~~~ivI~TTN~~~~--Ld~allRpGR~d~~  368 (455)
                      .+.+|+||.+|.+.....         ......... +.+.+..-   ...+.-+|.|+.....  +...+-.    ...
T Consensus        81 ~~~llilDglDE~~~~~~---------~~~~~~~~~~l~~l~~~~---~~~~~~liit~r~~~~~~~~~~~~~----~~~  144 (166)
T PF05729_consen   81 KRVLLILDGLDELEEQDQ---------SQERQRLLDLLSQLLPQA---LPPGVKLIITSRPRAFPDLRRRLKQ----AQI  144 (166)
T ss_pred             CceEEEEechHhcccchh---------hhHHHHHHHHHHHHhhhc---cCCCCeEEEEEcCChHHHHHHhcCC----CcE
Confidence            567999999998753100         001111222 22333321   1123334444443221  2222222    157


Q ss_pred             EEeCCCCHHHHHHHHHHhhc
Q 047029          369 IHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       369 I~~~~p~~~~~~~L~~~~l~  388 (455)
                      +++...+.++.++++++|+.
T Consensus       145 ~~l~~~~~~~~~~~~~~~f~  164 (166)
T PF05729_consen  145 LELEPFSEEDIKQYLRKYFS  164 (166)
T ss_pred             EEECCCCHHHHHHHHHHHhh
Confidence            89999999999999999885

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

Probab=98.43  E-value=8.6e-07  Score=76.69  Aligned_cols=38  Identities=37%  Similarity=0.607  Sum_probs=29.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc--------CCcEEEEeccccC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL--------KFDIYDMELASLR  278 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l--------~~~v~~l~~~~~~  278 (455)
                      ++.++++||||+|||++++.+++.+        +.+++.+++....
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   49 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSR   49 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHS
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCC
Confidence            4579999999999999999999988        6778888776543

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.40  E-value=2.4e-06  Score=89.80  Aligned_cols=153  Identities=19%  Similarity=0.198  Sum_probs=91.0

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChH
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNS  281 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~  281 (455)
                      .+..+++.....+.+.+.+.....           ....++++|++||||+++|+++....   +.+++.++|..+.. .
T Consensus       137 ~~~~lig~s~~~~~l~~~i~~~a~-----------~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~-~  204 (445)
T TIGR02915       137 ALRGLITSSPGMQKICRTIEKIAP-----------SDITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPE-N  204 (445)
T ss_pred             cccceeecCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCCh-H
Confidence            345566666665666655543221           24579999999999999999998876   46899999998743 3


Q ss_pred             HHHHHHHh------------------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-ccC---
Q 047029          282 DLRRLLVS------------------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-SSC---  339 (455)
Q Consensus       282 ~l~~ll~~------------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~~~---  339 (455)
                      .+...+..                  ...+..||||||+.+..                .....|+..++.-. ...   
T Consensus       205 ~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~~i~~l~~----------------~~q~~l~~~l~~~~~~~~~~~  268 (445)
T TIGR02915       205 LLESELFGYEKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPL----------------NLQAKLLRFLQERVIERLGGR  268 (445)
T ss_pred             HHHHHhcCCCCCCcCCCccCCCCceeECCCCEEEEechhhCCH----------------HHHHHHHHHHhhCeEEeCCCC
Confidence            34433321                  13467899999998743                33455666664321 111   


Q ss_pred             ---CCceEEEEEcCCC-------CCCCccccCCCceeEEEEeCCCCHHHHH----HHHHHhhc
Q 047029          340 ---GDERIIVFTTNYK-------ERLDPALLRPGRMDMHIHMSYLTPGGFK----ILAFNYLK  388 (455)
Q Consensus       340 ---~~~~ivI~TTN~~-------~~Ld~allRpGR~d~~I~~~~p~~~~~~----~L~~~~l~  388 (455)
                         ..++-+|+||+..       ..+.+.|..  |+. .+.+..|.-.+|.    .|+..|+.
T Consensus       269 ~~~~~~~rii~~~~~~l~~~~~~~~~~~~L~~--~l~-~~~i~lPpLr~R~~Di~~l~~~~l~  328 (445)
T TIGR02915       269 EEIPVDVRIVCATNQDLKRMIAEGTFREDLFY--RIA-EISITIPPLRSRDGDAVLLANAFLE  328 (445)
T ss_pred             ceeeeceEEEEecCCCHHHHHHcCCccHHHHH--Hhc-cceecCCCchhchhhHHHHHHHHHH
Confidence               1245677777653       234444443  442 2344444444443    46666654

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=98.39  E-value=3.1e-06  Score=89.72  Aligned_cols=154  Identities=17%  Similarity=0.220  Sum_probs=97.0

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChH
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNS  281 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~  281 (455)
                      .+.+++|.....+.+.+.+.....           ....+|+.|++||||+++|+++....   +.+++.++|..+.. .
T Consensus       136 ~~~~lig~s~~~~~l~~~~~~~~~-----------~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~-~  203 (469)
T PRK10923        136 PTTDIIGEAPAMQDVFRIIGRLSR-----------SSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPK-D  203 (469)
T ss_pred             ccccceecCHHHHHHHHHHHHHhc-----------cCCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCH-H
Confidence            456778877666666665543222           24579999999999999999999987   46899999988733 3


Q ss_pred             HHHHHHHh------------------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-ccCC--
Q 047029          282 DLRRLLVS------------------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-SSCG--  340 (455)
Q Consensus       282 ~l~~ll~~------------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~~~~--  340 (455)
                      .+...+..                  ...+..|||||||.+..                .....|+.+++... ...+  
T Consensus       204 ~~~~~lfg~~~g~~~~~~~~~~g~~~~a~~Gtl~l~~i~~l~~----------------~~q~~L~~~l~~~~~~~~~~~  267 (469)
T PRK10923        204 LIESELFGHEKGAFTGANTIRQGRFEQADGGTLFLDEIGDMPL----------------DVQTRLLRVLADGQFYRVGGY  267 (469)
T ss_pred             HHHHHhcCCCCCCCCCCCcCCCCCeeECCCCEEEEeccccCCH----------------HHHHHHHHHHhcCcEEeCCCC
Confidence            33333311                  22456899999998743                23445666665321 1111  


Q ss_pred             ----CceEEEEEcCCC-------CCCCccccCCCce-eEEEEeCCCCH--HHHHHHHHHhhc
Q 047029          341 ----DERIIVFTTNYK-------ERLDPALLRPGRM-DMHIHMSYLTP--GGFKILAFNYLK  388 (455)
Q Consensus       341 ----~~~ivI~TTN~~-------~~Ld~allRpGR~-d~~I~~~~p~~--~~~~~L~~~~l~  388 (455)
                          -++-||+||+..       ..+.+.|..  |+ ...|++|+...  +....|+..|+.
T Consensus       268 ~~~~~~~rii~~~~~~l~~~~~~~~~~~~L~~--~l~~~~i~~PpLreR~~Di~~l~~~~l~  327 (469)
T PRK10923        268 APVKVDVRIIAATHQNLEQRVQEGKFREDLFH--RLNVIRVHLPPLRERREDIPRLARHFLQ  327 (469)
T ss_pred             CeEEeeEEEEEeCCCCHHHHHHcCCchHHHHH--HhcceeecCCCcccchhhHHHHHHHHHH
Confidence                234677777643       234556665  66 46666666543  345567777764

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=98.37  E-value=1.2e-05  Score=79.56  Aligned_cols=111  Identities=20%  Similarity=0.248  Sum_probs=79.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC----------------cEEEEeccc---cCChHHHHHHHHhhC------CceE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF----------------DIYDMELAS---LRSNSDLRRLLVSTG------NRSI  295 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~----------------~v~~l~~~~---~~~~~~l~~ll~~~~------~~~I  295 (455)
                      +..|||+||+|+||+.+|.++|..+-+                |++.+....   ..+-..++.+.....      ...|
T Consensus        19 ~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~~kv   98 (290)
T PRK05917         19 PSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESPYKI   98 (290)
T ss_pred             CeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCCceE
Confidence            558999999999999999999998832                343332211   123345555544432      3579


Q ss_pred             EEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCC
Q 047029          296 LVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYL  374 (455)
Q Consensus       296 L~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p  374 (455)
                      ++||++|.+-.                ...+.||..++.    .+++.++|+.|+.++.|.|.+++  |+ ..+.|+.+
T Consensus        99 ~ii~~ad~mt~----------------~AaNaLLK~LEE----Pp~~~~fiL~~~~~~~ll~TI~S--Rc-q~~~~~~~  154 (290)
T PRK05917         99 YIIHEADRMTL----------------DAISAFLKVLED----PPQHGVIILTSAKPQRLPPTIRS--RS-LSIHIPME  154 (290)
T ss_pred             EEEechhhcCH----------------HHHHHHHHHhhc----CCCCeEEEEEeCChhhCcHHHHh--cc-eEEEccch
Confidence            99999998742                456778888775    34678999999999999999998  88 46777654

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=98.37  E-value=1.6e-06  Score=92.37  Aligned_cols=161  Identities=24%  Similarity=0.288  Sum_probs=97.7

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhc-CCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc--------cC
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVG-KAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS--------LR  278 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g-~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~--------~~  278 (455)
                      ++.+.+++|+.++=.|  |--....+...| ....-++||+|.||||||.+.+.+++.+...+|.--..+        +.
T Consensus       430 sIye~edvKkglLLqL--fGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVt  507 (804)
T KOG0478|consen  430 SIYELEDVKKGLLLQL--FGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVT  507 (804)
T ss_pred             hhhcccchhhhHHHHH--hcCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchhcceeeEE
Confidence            4556777777775433  222222222222 122347999999999999999999999866665422111        11


Q ss_pred             ChHHHHHHHHhh-----CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhh---------cccccCCCceE
Q 047029          279 SNSDLRRLLVST-----GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVD---------GLWSSCGDERI  344 (455)
Q Consensus       279 ~~~~l~~ll~~~-----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ld---------g~~~~~~~~~i  344 (455)
                      .+.+-++++.+.     +...|-+|||+|.+..                .+.+.|++.|+         |+...-+...-
T Consensus       508 rd~dtkqlVLesGALVLSD~GiCCIDEFDKM~d----------------StrSvLhEvMEQQTvSIAKAGII~sLNAR~S  571 (804)
T KOG0478|consen  508 KDPDTRQLVLESGALVLSDNGICCIDEFDKMSD----------------STRSVLHEVMEQQTLSIAKAGIIASLNARCS  571 (804)
T ss_pred             ecCccceeeeecCcEEEcCCceEEchhhhhhhH----------------HHHHHHHHHHHHhhhhHhhcceeeeccccce
Confidence            122233333332     3468999999998743                23445555554         33333334456


Q ss_pred             EEEEcCCCC-------------CCCccccCCCceeEEE-EeCCCCHHHHHHHHHHhhc
Q 047029          345 IVFTTNYKE-------------RLDPALLRPGRMDMHI-HMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       345 vI~TTN~~~-------------~Ld~allRpGR~d~~I-~~~~p~~~~~~~L~~~~l~  388 (455)
                      |+++.|+.+             .|+|.|++  |||... -++.|++..=+.|..+...
T Consensus       572 VLAaANP~~skynp~k~i~eNI~LpptLLS--RFDLIylllD~~DE~~Dr~La~Hivs  627 (804)
T KOG0478|consen  572 VLAAANPIRSKYNPNKSIIENINLPPTLLS--RFDLIFLLLDKPDERSDRRLADHIVA  627 (804)
T ss_pred             eeeeeccccccCCCCCchhhccCCChhhhh--hhcEEEEEecCcchhHHHHHHHHHHH
Confidence            889999542             37899999  999765 4477777755556555544

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=98.36  E-value=3.3e-06  Score=89.04  Aligned_cols=119  Identities=19%  Similarity=0.193  Sum_probs=76.0

Q ss_pred             CcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHH
Q 047029          206 FDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSD  282 (455)
Q Consensus       206 fd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~  282 (455)
                      +..+++....-..+.+.+......           ...+|++|++||||+++|+++....   +.+++.++|..+.. ..
T Consensus       142 ~~~ii~~S~~~~~~~~~~~~~a~~-----------~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~-~~  209 (457)
T PRK11361        142 WGHILTNSPAMMDICKDTAKIALS-----------QASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPE-SL  209 (457)
T ss_pred             ccceecccHHHhHHHHHHHHHcCC-----------CcEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCH-HH
Confidence            445666555555555555433322           4579999999999999999998875   57899999998743 33


Q ss_pred             HHHHHHh------------------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-cc-----
Q 047029          283 LRRLLVS------------------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-SS-----  338 (455)
Q Consensus       283 l~~ll~~------------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~~-----  338 (455)
                      +...+..                  ...+.+|||||||.+..                .....|++.++... ..     
T Consensus       210 ~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~ld~i~~l~~----------------~~q~~L~~~l~~~~~~~~~~~~  273 (457)
T PRK11361        210 LESELFGHEKGAFTGAQTLRQGLFERANEGTLLLDEIGEMPL----------------VLQAKLLRILQEREFERIGGHQ  273 (457)
T ss_pred             HHHHhcCCCCCCCCCCCCCCCCceEECCCCEEEEechhhCCH----------------HHHHHHHHHHhcCcEEeCCCCc
Confidence            3333221                  12357999999998843                23455666665321 11     


Q ss_pred             -CCCceEEEEEcCCC
Q 047029          339 -CGDERIIVFTTNYK  352 (455)
Q Consensus       339 -~~~~~ivI~TTN~~  352 (455)
                       ...++-||+|||..
T Consensus       274 ~~~~~~rii~~t~~~  288 (457)
T PRK11361        274 TIKVDIRIIAATNRD  288 (457)
T ss_pred             eeeeceEEEEeCCCC
Confidence             11235688888753

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=98.35  E-value=1.1e-05  Score=78.54  Aligned_cols=113  Identities=14%  Similarity=0.124  Sum_probs=79.7

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcCC----------------------cEEEEeccc-cCChHHHHHHHHhh---C-
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLKF----------------------DIYDMELAS-LRSNSDLRRLLVST---G-  291 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~~----------------------~v~~l~~~~-~~~~~~l~~ll~~~---~-  291 (455)
                      ..+..+||+||+|+||..+|.++|..+-+                      |++.+.... .-+-.+++++....   + 
T Consensus         5 ~~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~   84 (261)
T PRK05818          5 NKTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSV   84 (261)
T ss_pred             CCCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCch
Confidence            45678999999999999999999988721                      233321111 11234455554322   1 


Q ss_pred             ---CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEE
Q 047029          292 ---NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMH  368 (455)
Q Consensus       292 ---~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~  368 (455)
                         ...|++|+++|.+-.                ...+.||..++.    .+.+.++|++|+.++.+.|.+++  |+. .
T Consensus        85 e~~~~KV~II~~ae~m~~----------------~AaNaLLK~LEE----Pp~~t~fiLit~~~~~lLpTI~S--RCq-~  141 (261)
T PRK05818         85 ESNGKKIYIIYGIEKLNK----------------QSANSLLKLIEE----PPKNTYGIFTTRNENNILNTILS--RCV-Q  141 (261)
T ss_pred             hcCCCEEEEeccHhhhCH----------------HHHHHHHHhhcC----CCCCeEEEEEECChHhCchHhhh--hee-e
Confidence               357999999998732                456778887765    35678999999999999999999  884 4


Q ss_pred             EEeCCC
Q 047029          369 IHMSYL  374 (455)
Q Consensus       369 I~~~~p  374 (455)
                      +.++.+
T Consensus       142 ~~~~~~  147 (261)
T PRK05818        142 YVVLSK  147 (261)
T ss_pred             eecCCh
Confidence            666665

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.34  E-value=4.7e-06  Score=88.08  Aligned_cols=153  Identities=18%  Similarity=0.254  Sum_probs=96.5

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHH
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDL  283 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l  283 (455)
                      ..+++....-+++.+.+.....           ....+++.|.+||||+++++++....   +.+++.++|..+. ...+
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a~-----------~~~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~-~~~~  201 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLSR-----------SDITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIP-KDLI  201 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHhC-----------cCCeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCC-HHHH
Confidence            4567776666666666654221           14579999999999999999998875   5689999998873 3333


Q ss_pred             HHHHHh------------------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc-cccCC----
Q 047029          284 RRLLVS------------------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL-WSSCG----  340 (455)
Q Consensus       284 ~~ll~~------------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~-~~~~~----  340 (455)
                      ...+..                  ...+..||||||+.+..                .....|+..++.. ....+    
T Consensus       202 ~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~ei~~l~~----------------~~q~~ll~~l~~~~~~~~~~~~~  265 (463)
T TIGR01818       202 ESELFGHEKGAFTGANTRRQGRFEQADGGTLFLDEIGDMPL----------------DAQTRLLRVLADGEFYRVGGRTP  265 (463)
T ss_pred             HHHhcCCCCCCCCCcccCCCCcEEECCCCeEEEEchhhCCH----------------HHHHHHHHHHhcCcEEECCCCce
Confidence            333311                  12467899999998743                2345566666522 11111    


Q ss_pred             --CceEEEEEcCCC-------CCCCccccCCCcee-EEEEeCCCC--HHHHHHHHHHhhcc
Q 047029          341 --DERIIVFTTNYK-------ERLDPALLRPGRMD-MHIHMSYLT--PGGFKILAFNYLKI  389 (455)
Q Consensus       341 --~~~ivI~TTN~~-------~~Ld~allRpGR~d-~~I~~~~p~--~~~~~~L~~~~l~~  389 (455)
                        .++-||+||+..       ..+.+.|..  |+. .+|++|+..  .+....|+..|+..
T Consensus       266 ~~~~~rii~~~~~~l~~~~~~~~f~~~L~~--rl~~~~i~lPpLr~R~~Di~~l~~~~l~~  324 (463)
T TIGR01818       266 IKVDVRIVAATHQNLEALVRQGKFREDLFH--RLNVIRIHLPPLRERREDIPRLARHFLAL  324 (463)
T ss_pred             eeeeeEEEEeCCCCHHHHHHcCCcHHHHHH--HhCcceecCCCcccchhhHHHHHHHHHHH
Confidence              134577777643       233344444  444 478888776  56677777777653

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=98.34  E-value=1.4e-05  Score=79.77  Aligned_cols=121  Identities=15%  Similarity=0.192  Sum_probs=88.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC-------------cEEEEe--ccccCChHHHHHHHHhh-------CCceEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF-------------DIYDME--LASLRSNSDLRRLLVST-------GNRSILVI  298 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~-------------~v~~l~--~~~~~~~~~l~~ll~~~-------~~~~IL~i  298 (455)
                      +..|||+|+.|.||+.++.++|+.+-+             ++..++  ... .+-.+++.+....       ..+.|++|
T Consensus        18 ~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~-i~vd~Ir~l~~~~~~~~~~~~~~KvvII   96 (299)
T PRK07132         18 SHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKD-LSKSEFLSAINKLYFSSFVQSQKKILII   96 (299)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCc-CCHHHHHHHHHHhccCCcccCCceEEEE
Confidence            568999999999999999999998721             233343  211 2335566665433       25689999


Q ss_pred             ecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHH
Q 047029          299 EDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGG  378 (455)
Q Consensus       299 DEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~  378 (455)
                      |++|.+-                ....+.||..++.-    ++..++|++|+.++.|-|.+..  |+ ..+++..++.++
T Consensus        97 ~~~e~m~----------------~~a~NaLLK~LEEP----p~~t~~il~~~~~~kll~TI~S--Rc-~~~~f~~l~~~~  153 (299)
T PRK07132         97 KNIEKTS----------------NSLLNALLKTIEEP----PKDTYFLLTTKNINKVLPTIVS--RC-QVFNVKEPDQQK  153 (299)
T ss_pred             ecccccC----------------HHHHHHHHHHhhCC----CCCeEEEEEeCChHhChHHHHh--Ce-EEEECCCCCHHH
Confidence            9998763                24556788887764    4567888888888999999998  87 579999999888


Q ss_pred             HHHHHHH
Q 047029          379 FKILAFN  385 (455)
Q Consensus       379 ~~~L~~~  385 (455)
                      ....+..
T Consensus       154 l~~~l~~  160 (299)
T PRK07132        154 ILAKLLS  160 (299)
T ss_pred             HHHHHHH
Confidence            7755543

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=98.32  E-value=4.2e-05  Score=75.98  Aligned_cols=119  Identities=18%  Similarity=0.234  Sum_probs=82.6

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCC------------------------cEEEEeccc-cCChHHHHHHHHhhC---
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKF------------------------DIYDMELAS-LRSNSDLRRLLVSTG---  291 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~------------------------~v~~l~~~~-~~~~~~l~~ll~~~~---  291 (455)
                      .+.+|||+||  +||+++|.++|..+-+                        |++.+.... .-+-.+++.+.....   
T Consensus        23 l~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~~~i~p~~~~I~idqIR~l~~~~~~~p  100 (290)
T PRK07276         23 LNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDVTVIEPQGQVIKTDTIRELVKNFSQSG  100 (290)
T ss_pred             cceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCeeeecCCCCcCCHHHHHHHHHHHhhCc
Confidence            3568999996  6899999999987721                        233332221 123356666654432   


Q ss_pred             ---CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEE
Q 047029          292 ---NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMH  368 (455)
Q Consensus       292 ---~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~  368 (455)
                         ...|++||++|.+-.                ...+.||..++.-    +.+.++|++|+.++.|-|.+++  |+ .+
T Consensus       101 ~~~~~kV~II~~ad~m~~----------------~AaNaLLKtLEEP----p~~t~~iL~t~~~~~lLpTI~S--Rc-q~  157 (290)
T PRK07276        101 YEGKQQVFIIKDADKMHV----------------NAANSLLKVIEEP----QSEIYIFLLTNDENKVLPTIKS--RT-QI  157 (290)
T ss_pred             ccCCcEEEEeehhhhcCH----------------HHHHHHHHHhcCC----CCCeEEEEEECChhhCchHHHH--cc-ee
Confidence               357999999998742                4567788887753    4568999999999999999999  88 57


Q ss_pred             EEeCCCCHHHHHHHHH
Q 047029          369 IHMSYLTPGGFKILAF  384 (455)
Q Consensus       369 I~~~~p~~~~~~~L~~  384 (455)
                      |.|+. +.++..+++.
T Consensus       158 i~f~~-~~~~~~~~L~  172 (290)
T PRK07276        158 FHFPK-NEAYLIQLLE  172 (290)
T ss_pred             eeCCC-cHHHHHHHHH
Confidence            88866 4554444443

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.30  E-value=3.8e-06  Score=93.54  Aligned_cols=122  Identities=20%  Similarity=0.311  Sum_probs=79.3

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcC-CCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC-----
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGK-AWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR-----  278 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~-~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~-----  278 (455)
                      .++|+++....|-+.+...-.+      ++. .+.-.+||.||.|+|||-||+|+|.++   .-.++.+|+++..     
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~g------l~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~evskl  636 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAG------LKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQEVSKL  636 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcc------cCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechhhhhhhhhc
Confidence            5677777777777776543321      222 244568999999999999999999998   4567888888621     


Q ss_pred             --------ChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc--cccCC-----C
Q 047029          279 --------SNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL--WSSCG-----D  341 (455)
Q Consensus       279 --------~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~--~~~~~-----~  341 (455)
                              +......+-....  ..+||+|||||..-                ...++.|+..+|..  .+..|     .
T Consensus       637 igsp~gyvG~e~gg~LteavrrrP~sVVLfdeIEkAh----------------~~v~n~llq~lD~GrltDs~Gr~Vd~k  700 (898)
T KOG1051|consen  637 IGSPPGYVGKEEGGQLTEAVKRRPYSVVLFEEIEKAH----------------PDVLNILLQLLDRGRLTDSHGREVDFK  700 (898)
T ss_pred             cCCCcccccchhHHHHHHHHhcCCceEEEEechhhcC----------------HHHHHHHHHHHhcCccccCCCcEeecc
Confidence                    1122223333332  35899999999752                24456677777632  12222     4


Q ss_pred             ceEEEEEcCC
Q 047029          342 ERIIVFTTNY  351 (455)
Q Consensus       342 ~~ivI~TTN~  351 (455)
                      +.|||+|+|.
T Consensus       701 N~I~IMTsn~  710 (898)
T KOG1051|consen  701 NAIFIMTSNV  710 (898)
T ss_pred             ceEEEEeccc
Confidence            5799999885

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=98.28  E-value=1.6e-05  Score=85.42  Aligned_cols=130  Identities=21%  Similarity=0.252  Sum_probs=84.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc----------CCcEEEEeccccCCh----------------------HHHHHHHH--
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL----------KFDIYDMELASLRSN----------------------SDLRRLLV--  288 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l----------~~~v~~l~~~~~~~~----------------------~~l~~ll~--  288 (455)
                      .+++.|-||||||.++..+-+.|          .+.++.++...+.+.                      ..|..-|.  
T Consensus       424 ~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~~  503 (767)
T KOG1514|consen  424 CMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEKIWEALSGERVTWDAALEALNFRFTVP  503 (767)
T ss_pred             eEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHHHHHhcccCcccHHHHHHHHHHhhccC
Confidence            68899999999999999999877          356666766554322                      22222232  


Q ss_pred             -hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccC---CCc
Q 047029          289 -STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLR---PGR  364 (455)
Q Consensus       289 -~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allR---pGR  364 (455)
                       ....++||+|||+|.|..             ..   ..-|-|++|--.. .+...+||+..|..+. ++.++-   ..|
T Consensus       504 k~~~~~~VvLiDElD~Lvt-------------r~---QdVlYn~fdWpt~-~~sKLvvi~IaNTmdl-PEr~l~nrvsSR  565 (767)
T KOG1514|consen  504 KPKRSTTVVLIDELDILVT-------------RS---QDVLYNIFDWPTL-KNSKLVVIAIANTMDL-PERLLMNRVSSR  565 (767)
T ss_pred             CCCCCCEEEEeccHHHHhc-------------cc---HHHHHHHhcCCcC-CCCceEEEEecccccC-HHHHhccchhhh
Confidence             113568999999999864             11   2335566653322 2345667777776543 333331   114


Q ss_pred             ee-EEEEeCCCCHHHHHHHHHHhhccc
Q 047029          365 MD-MHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       365 ~d-~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      ++ ..|.|.+.+-+|..+++...|...
T Consensus       566 lg~tRi~F~pYth~qLq~Ii~~RL~~~  592 (767)
T KOG1514|consen  566 LGLTRICFQPYTHEQLQEIISARLKGL  592 (767)
T ss_pred             ccceeeecCCCCHHHHHHHHHHhhcch
Confidence            44 357888889999999999888765

>PHA02774 E1; Provisional

Probab=98.27  E-value=7e-06  Score=87.48  Aligned_cols=113  Identities=22%  Similarity=0.255  Sum_probs=68.1

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEE-EeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCC
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYD-MELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGG  315 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~-l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~  315 (455)
                      |++.+++++||||||||||+++.+|++.++..++. ++..   +.-    .|.......|++|||+-.-           
T Consensus       430 ~~PKknciv~~GPP~TGKS~fa~sL~~~L~G~vi~fvN~~---s~F----wLqpl~d~ki~vlDD~t~~-----------  491 (613)
T PHA02774        430 GIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVISFVNSK---SHF----WLQPLADAKIALLDDATHP-----------  491 (613)
T ss_pred             cCCcccEEEEECCCCCCHHHHHHHHHHHhCCCEEEEEECc---ccc----ccchhccCCEEEEecCcch-----------
Confidence            56656799999999999999999999999766544 4432   111    1333445679999999321           


Q ss_pred             CCCCcchhhHhhhhhhhhcccccC---------CCceEEEEEcCCCCCCCc---cccCCCceeEEEEeCCC
Q 047029          316 YDENNSQVTLSGLLNFVDGLWSSC---------GDERIIVFTTNYKERLDP---ALLRPGRMDMHIHMSYL  374 (455)
Q Consensus       316 ~~~~~~~~~ls~LL~~ldg~~~~~---------~~~~ivI~TTN~~~~Ld~---allRpGR~d~~I~~~~p  374 (455)
                          ...-.-..|-+.+||-.-+-         -...-+|+|||..-.-++   .|..  |+ ..++|+.|
T Consensus       492 ----~w~y~d~~Lrn~LdG~~v~lD~Khk~~~q~k~pPlIITSN~d~~~~~~~~yL~s--Ri-~~f~F~n~  555 (613)
T PHA02774        492 ----CWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKAEDRYKYLHS--RI-TVFEFPNP  555 (613)
T ss_pred             ----HHHHHHHHHHHHcCCCcceeeecccCcccccCCCEEEecCCCcccchhhHHhhh--hE-EEEECCCC
Confidence                11122234677778762110         011347889994433343   3334  66 45666554

>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=98.25  E-value=1.1e-05  Score=79.41  Aligned_cols=145  Identities=22%  Similarity=0.222  Sum_probs=75.6

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHH--c--CCc-EEEEeccccCCh------------------------HHHHHHHHhh
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANY--L--KFD-IYDMELASLRSN------------------------SDLRRLLVST  290 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~--l--~~~-v~~l~~~~~~~~------------------------~~l~~ll~~~  290 (455)
                      ..+-+.|+|++|+|||+||..+++.  .  .++ ++.++++...+.                        ..+...+...
T Consensus        18 ~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~   97 (287)
T PF00931_consen   18 EVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISDPKDIEELQDQLREL   97 (287)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSCCSSHHHHHHHHHHH
T ss_pred             CeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccchhh
Confidence            3567999999999999999999987  3  232 233443322111                        1112222111


Q ss_pred             --CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEE
Q 047029          291 --GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMH  368 (455)
Q Consensus       291 --~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~  368 (455)
                        .++++|||||++...                  .+..+...+-..    ..+.-||+||...... ...   +.-+..
T Consensus        98 L~~~~~LlVlDdv~~~~------------------~~~~l~~~~~~~----~~~~kilvTTR~~~v~-~~~---~~~~~~  151 (287)
T PF00931_consen   98 LKDKRCLLVLDDVWDEE------------------DLEELREPLPSF----SSGSKILVTTRDRSVA-GSL---GGTDKV  151 (287)
T ss_dssp             HCCTSEEEEEEEE-SHH------------------HH-------HCH----HSS-EEEEEESCGGGG-TTH---HSCEEE
T ss_pred             hccccceeeeeeecccc------------------cccccccccccc----cccccccccccccccc-ccc---cccccc
Confidence              347999999998542                  122222222111    1234566677653221 111   111578


Q ss_pred             EEeCCCCHHHHHHHHHHhhcccC----CCchHHHHHhhccccCchh
Q 047029          369 IHMSYLTPGGFKILAFNYLKIKS----HSMFDEIEELIKEVEVTPA  410 (455)
Q Consensus       369 I~~~~p~~~~~~~L~~~~l~~~~----~~l~~ei~~ll~~~~~tpa  410 (455)
                      ++++..+.++-.+|+..+.....    ..+.+...++++...-.|.
T Consensus       152 ~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  197 (287)
T PF00931_consen  152 IELEPLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPL  197 (287)
T ss_dssp             EECSS--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999999999999976544    2222333344444344554

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.

>PLN03210 Resistant to P

Probab=98.23  E-value=1.6e-05  Score=93.27  Aligned_cols=154  Identities=18%  Similarity=0.193  Sum_probs=89.8

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcE---EEEec
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDI---YDMEL  274 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v---~~l~~  274 (455)
                      .....+..++.++|.+...+++...+.           .+....+-+-++||+|+||||||+++++.+...+   +.++.
T Consensus       175 l~~~~~~~~~~~vG~~~~l~~l~~lL~-----------l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~  243 (1153)
T PLN03210        175 LNLTPSNDFEDFVGIEDHIAKMSSLLH-----------LESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDR  243 (1153)
T ss_pred             hccccCcccccccchHHHHHHHHHHHc-----------cccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeec
Confidence            334456678899998887777766553           1223356789999999999999999998874321   11111


Q ss_pred             ccc-------C-----C---hHH-----HHHHHH--------------h-hCCceEEEEecccchhhhhhhcCCCCCCCC
Q 047029          275 ASL-------R-----S---NSD-----LRRLLV--------------S-TGNRSILVIEDIDCSIELENRQCGGGYDEN  319 (455)
Q Consensus       275 ~~~-------~-----~---~~~-----l~~ll~--------------~-~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~  319 (455)
                      ..+       .     .   ...     +.+++.              . ..++.+|++||++..               
T Consensus       244 ~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~---------------  308 (1153)
T PLN03210        244 AFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQ---------------  308 (1153)
T ss_pred             cccccchhhcccccccccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCH---------------
Confidence            000       0     0   000     111110              0 124679999998742               


Q ss_pred             cchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          320 NSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       320 ~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                         ..+..+....+  |.  +.+--||+||...     .+++....+..++++.|+.++..+|+..+...
T Consensus       309 ---~~l~~L~~~~~--~~--~~GsrIIiTTrd~-----~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~  366 (1153)
T PLN03210        309 ---DVLDALAGQTQ--WF--GSGSRIIVITKDK-----HFLRAHGIDHIYEVCLPSNELALEMFCRSAFK  366 (1153)
T ss_pred             ---HHHHHHHhhCc--cC--CCCcEEEEEeCcH-----HHHHhcCCCeEEEecCCCHHHHHHHHHHHhcC
Confidence               11222222222  11  2233455677653     33333356778999999999999999887643

syringae 6; Provisional

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.22  E-value=4.9e-06  Score=90.14  Aligned_cols=119  Identities=21%  Similarity=0.193  Sum_probs=85.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCC--cEEEEeccc----cCChHHHHHHHHh-----------hCCceEEEEecccch
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKF--DIYDMELAS----LRSNSDLRRLLVS-----------TGNRSILVIEDIDCS  304 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~--~v~~l~~~~----~~~~~~l~~ll~~-----------~~~~~IL~iDEiD~l  304 (455)
                      .|+||-|++|||||+++++++..+..  ++..+..+.    +.+.-++...+..           ...+.|||+||+..+
T Consensus        26 gGv~i~g~~G~~ks~~~r~l~~llp~~~p~r~~p~~~t~~~L~Gg~Dl~~~l~~g~~~~~pGlla~Ah~GvL~lDe~n~~  105 (584)
T PRK13406         26 GGVVLRARAGPVRDRWLAALRALLPAGTPLRRLPPGIADDRLLGGLDLAATLRAGRPVAQRGLLAEADGGVLVLAMAERL  105 (584)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhcCCCCCcccCCCCCcHHHccCCchHHhHhhcCCcCCCCCceeeccCCEEEecCcccC
Confidence            58999999999999999999999854  666655432    2233445544422           224589999999876


Q ss_pred             hhhhhhcCCCCCCCCcchhhHhhhhhhhh---------cccccCCCceEEEEEcCCC---CCCCccccCCCceeEEEEeC
Q 047029          305 IELENRQCGGGYDENNSQVTLSGLLNFVD---------GLWSSCGDERIIVFTTNYK---ERLDPALLRPGRMDMHIHMS  372 (455)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~ls~LL~~ld---------g~~~~~~~~~ivI~TTN~~---~~Ld~allRpGR~d~~I~~~  372 (455)
                      -                ..+++.|++.|+         |.....+...++|+|-|..   +.|.++++.  ||+++|.++
T Consensus       106 ~----------------~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLD--Rf~l~v~v~  167 (584)
T PRK13406        106 E----------------PGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALAD--RLAFHLDLD  167 (584)
T ss_pred             C----------------HHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHh--heEEEEEcC
Confidence            3                367888888885         3333334456677765433   568999999  999999999


Q ss_pred             CCCHHH
Q 047029          373 YLTPGG  378 (455)
Q Consensus       373 ~p~~~~  378 (455)
                      +++..+
T Consensus       168 ~~~~~~  173 (584)
T PRK13406        168 GLALRD  173 (584)
T ss_pred             CCChHH
Confidence            988764

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.22  E-value=2.7e-05  Score=81.65  Aligned_cols=169  Identities=20%  Similarity=0.306  Sum_probs=96.6

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEe-------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME-------  273 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~-------  273 (455)
                      -.|.+.++|+.......++.+++..+....      .....+-+||+||+||||||.++.||.++|+.+..-.       
T Consensus        76 y~P~t~eeLAVHkkKI~eVk~WL~~~~~~~------~~l~~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew~Npi~~~~  149 (634)
T KOG1970|consen   76 YKPRTLEELAVHKKKISEVKQWLKQVAEFT------PKLGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEWSNPINLKE  149 (634)
T ss_pred             cCcccHHHHhhhHHhHHHHHHHHHHHHHhc------cCCCceEEEEeCCCCCCchhHHHHHHHhhCceeeeecCCccccc
Confidence            457899999988777777777666222111      1223567899999999999999999999998887644       


Q ss_pred             ccccCC---------hHHHHH---HHHhh--------------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhh
Q 047029          274 LASLRS---------NSDLRR---LLVST--------------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSG  327 (455)
Q Consensus       274 ~~~~~~---------~~~l~~---ll~~~--------------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~  327 (455)
                      ...+.+         .+.|..   .+...              ..+.+|+|||+=..+-            ......+..
T Consensus       150 ~~~~h~~t~~~~~~~~s~L~~fesFler~~kyg~l~~~g~~~~~~~~liLveDLPn~~~------------~d~~~~f~e  217 (634)
T KOG1970|consen  150 PENLHNETSFLMFPYQSQLAVFESFLLRATKYGSLQMSGDDLRTDKKLILVEDLPNQFY------------RDDSETFRE  217 (634)
T ss_pred             cccccccchhcccchhhHHHHHHHHHHHHHhhchhhhcccccccCceEEEeeccchhhh------------hhhHHHHHH
Confidence            111111         112211   11111              2356999999975542            112233444


Q ss_pred             hhhhhhcccccCCCceEEEEEcC--CCCCCCccccCC------CceeEEEEeCCCCHHHHHHHHHHhhcccCC
Q 047029          328 LLNFVDGLWSSCGDERIIVFTTN--YKERLDPALLRP------GRMDMHIHMSYLTPGGFKILAFNYLKIKSH  392 (455)
Q Consensus       328 LL~~ldg~~~~~~~~~ivI~TTN--~~~~Ld~allRp------GR~d~~I~~~~p~~~~~~~L~~~~l~~~~~  392 (455)
                      +|..+-.    .+..-+||+.|+  .++..++..+.|      .|+ .+|.|-+-...-.++.+++++..+..
T Consensus       218 vL~~y~s----~g~~PlIf~iTd~~~~g~nnq~rlf~~d~q~~~ri-~~IsFNPIa~T~MKK~L~ric~~e~~  285 (634)
T KOG1970|consen  218 VLRLYVS----IGRCPLIFIITDSLSNGNNNQDRLFPKDIQEEPRI-SNISFNPIAPTIMKKFLKRICRIEAN  285 (634)
T ss_pred             HHHHHHh----cCCCcEEEEEeccccCCCcchhhhchhhhhhccCc-ceEeecCCcHHHHHHHHHHHHHHhcc
Confidence            4443221    122224444444  234444433332      255 36777777777777777777766543

>PRK15115 response regulator GlrR; Provisional

Probab=98.21  E-value=8.7e-06  Score=85.60  Aligned_cols=126  Identities=19%  Similarity=0.202  Sum_probs=77.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHHHHHHHh------------------hCCceEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDLRRLLVS------------------TGNRSILVIE  299 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l~~ll~~------------------~~~~~IL~iD  299 (455)
                      ...++++|++||||+++|+++.+..   +.+++.++|..+.. ..+...+..                  ...+..||||
T Consensus       157 ~~~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~-~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~  235 (444)
T PRK15115        157 DVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPE-QLLESELFGHARGAFTGAVSNREGLFQAAEGGTLFLD  235 (444)
T ss_pred             CCeEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCH-HHHHHHhcCCCcCCCCCCccCCCCcEEECCCCEEEEE
Confidence            4579999999999999999999876   47899999998732 333333211                  2245789999


Q ss_pred             cccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-ccCC------CceEEEEEcCCCCCCCccccCCCce-------
Q 047029          300 DIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-SSCG------DERIIVFTTNYKERLDPALLRPGRM-------  365 (455)
Q Consensus       300 EiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~~~~------~~~ivI~TTN~~~~Ld~allRpGR~-------  365 (455)
                      |||.+..                .....|+.+++... ...|      .++.+|+||+..  ++ .++..|+|       
T Consensus       236 ~i~~l~~----------------~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~--l~-~~~~~~~f~~~l~~~  296 (444)
T PRK15115        236 EIGDMPA----------------PLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRD--LP-KAMARGEFREDLYYR  296 (444)
T ss_pred             ccccCCH----------------HHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCC--HH-HHHHcCCccHHHHHh
Confidence            9998843                23445666665321 1111      145777888753  32 22233454       


Q ss_pred             --eEEEEeCCCCHHHH----HHHHHHhhc
Q 047029          366 --DMHIHMSYLTPGGF----KILAFNYLK  388 (455)
Q Consensus       366 --d~~I~~~~p~~~~~----~~L~~~~l~  388 (455)
                        ...|++  |.-.+|    ..|+..|+.
T Consensus       297 l~~~~i~l--PpLr~R~eDi~~l~~~~l~  323 (444)
T PRK15115        297 LNVVSLKI--PALAERTEDIPLLANHLLR  323 (444)
T ss_pred             hceeeecC--CChHhccccHHHHHHHHHH
Confidence              344444  444444    346666654

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=98.15  E-value=1.5e-06  Score=88.28  Aligned_cols=131  Identities=24%  Similarity=0.242  Sum_probs=75.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc----c-----C----ChHHHHHHHHhhCCceEEEEecccchhhhh
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS----L-----R----SNSDLRRLLVSTGNRSILVIEDIDCSIELE  308 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~----~-----~----~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~  308 (455)
                      -++||.|.||||||.|.+.+++.....+|..-.+.    +     .    ++-.+..-..-...+.|++|||+|.+-.  
T Consensus        58 ihiLlvGdpg~gKS~ll~~~~~~~pr~v~~~g~~~s~~gLta~~~~d~~~~~~~leaGalvlad~GiccIDe~dk~~~--  135 (331)
T PF00493_consen   58 IHILLVGDPGTGKSQLLKYVAKLAPRSVYTSGKGSSAAGLTASVSRDPVTGEWVLEAGALVLADGGICCIDEFDKMKE--  135 (331)
T ss_dssp             --EEEECSCHHCHHHHHHCCCCT-SSEEEEECCGSTCCCCCEEECCCGGTSSECEEE-HHHHCTTSEEEECTTTT--C--
T ss_pred             cceeeccchhhhHHHHHHHHHhhCCceEEECCCCcccCCccceeccccccceeEEeCCchhcccCceeeecccccccc--
Confidence            36999999999999999999877766665432111    1     0    1101111111224679999999998632  


Q ss_pred             hhcCCCCCCCCcchhhHhhhhhhhhcc---------cccCCCceEEEEEcCCCC-------------CCCccccCCCcee
Q 047029          309 NRQCGGGYDENNSQVTLSGLLNFVDGL---------WSSCGDERIIVFTTNYKE-------------RLDPALLRPGRMD  366 (455)
Q Consensus       309 ~~~~~~~~~~~~~~~~ls~LL~~ldg~---------~~~~~~~~ivI~TTN~~~-------------~Ld~allRpGR~d  366 (455)
                                    .....|++.|+.-         ...-+.+.-|++++|+..             .++++|+.  |||
T Consensus       136 --------------~~~~~l~eaMEqq~isi~kagi~~~l~ar~svlaa~NP~~g~~~~~~~~~~ni~l~~~LLS--RFD  199 (331)
T PF00493_consen  136 --------------DDRDALHEAMEQQTISIAKAGIVTTLNARCSVLAAANPKFGRYDPNKSLSENINLPPPLLS--RFD  199 (331)
T ss_dssp             --------------HHHHHHHHHHHCSCEEECTSSSEEEEE---EEEEEE--TT--S-TTS-CGCCT-S-CCCHC--C-S
T ss_pred             --------------hHHHHHHHHHHcCeeccchhhhcccccchhhhHHHHhhhhhhcchhhhhHHhcccchhhHh--hcC
Confidence                          2345677777632         111223456899999775             48889999  999


Q ss_pred             EEEEe-CCCCHHHHHHHHHHhhccc
Q 047029          367 MHIHM-SYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       367 ~~I~~-~~p~~~~~~~L~~~~l~~~  390 (455)
                      ..+.+ ..++.+.=..++++.+...
T Consensus       200 Lif~l~D~~d~~~D~~la~~il~~~  224 (331)
T PF00493_consen  200 LIFLLRDKPDEEEDERLAEHILDSH  224 (331)
T ss_dssp             EEECC--TTT-HHHHHHHHHHHTTT
T ss_pred             EEEEeccccccccccccceEEEecc
Confidence            98766 6677776677777666543

; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.14  E-value=2e-05  Score=69.91  Aligned_cols=63  Identities=17%  Similarity=0.403  Sum_probs=41.9

Q ss_pred             eEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC-----------------------------ChHHHH---HHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR-----------------------------SNSDLR---RLLV  288 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~-----------------------------~~~~l~---~ll~  288 (455)
                      ++++||||+|||+++..++..+   +.+++.++.....                             ....+.   ..+.
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLLSKAERLR   81 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHHHHHHHHH
Confidence            6899999999999999999887   4455554432110                             011111   1223


Q ss_pred             hhCCceEEEEecccchhh
Q 047029          289 STGNRSILVIEDIDCSIE  306 (455)
Q Consensus       289 ~~~~~~IL~iDEiD~l~~  306 (455)
                      ....+.+++|||+..+..
T Consensus        82 ~~~~~~~lviDe~~~~~~   99 (165)
T cd01120          82 ERGGDDLIILDELTRLVR   99 (165)
T ss_pred             hCCCCEEEEEEcHHHHHH
Confidence            345678999999998765

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=98.14  E-value=4.3e-06  Score=79.80  Aligned_cols=28  Identities=18%  Similarity=0.443  Sum_probs=24.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDI  269 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v  269 (455)
                      .+++|+|+||||||++|.++|+.++..+
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l~~~l   45 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDVFWKL   45 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhhc
Confidence            3799999999999999999999986433

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.09  E-value=1.9e-05  Score=90.71  Aligned_cols=129  Identities=22%  Similarity=0.304  Sum_probs=93.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh-------------HHH----HHHHHhhCCceEEEEecccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN-------------SDL----RRLLVSTGNRSILVIEDIDC  303 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~-------------~~l----~~ll~~~~~~~IL~iDEiD~  303 (455)
                      .+++||.|.||+|||+|+.|+|+..|-.++.+++++-..-             .++    ...+..+.++..+++||+.-
T Consensus      1543 ~kpilLEGsPGVGKTSlItaLAr~tG~kliRINLSeQTdL~DLfGsd~Pve~~Gef~w~dapfL~amr~G~WVlLDEiNL 1622 (4600)
T COG5271        1543 GKPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQTDLCDLFGSDLPVEEGGEFRWMDAPFLHAMRDGGWVLLDEINL 1622 (4600)
T ss_pred             CCceeecCCCCccHHHHHHHHHHHhcCceEEeeccccchHHHHhCCCCCcccCceeEecccHHHHHhhcCCEEEeehhhh
Confidence            5689999999999999999999999999999998864210             111    12344556778999999985


Q ss_pred             hhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc----------ccCCCceEEEEEcCCC------CCCCccccCCCceeE
Q 047029          304 SIELENRQCGGGYDENNSQVTLSGLLNFVDGLW----------SSCGDERIIVFTTNYK------ERLDPALLRPGRMDM  367 (455)
Q Consensus       304 l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~----------~~~~~~~ivI~TTN~~------~~Ld~allRpGR~d~  367 (455)
                      .                ++..+.+|-..+|...          -.+.++..|++|-|+.      ..|+..++.  ||. 
T Consensus      1623 a----------------SQSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq~qggGRKgLPkSF~n--RFs- 1683 (4600)
T COG5271        1623 A----------------SQSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQDQGGGRKGLPKSFLN--RFS- 1683 (4600)
T ss_pred             h----------------HHHHHHHHHHHHhhccccccccccceeeccCCeeeeeecCchhcCCCcccCCHHHhh--hhh-
Confidence            3                2445666665555321          1234556677777754      458889998  994 


Q ss_pred             EEEeCCCCHHHHHHHHHHhhc
Q 047029          368 HIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       368 ~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      +|.|...+.+....|+...+.
T Consensus      1684 vV~~d~lt~dDi~~Ia~~~yp 1704 (4600)
T COG5271        1684 VVKMDGLTTDDITHIANKMYP 1704 (4600)
T ss_pred             eEEecccccchHHHHHHhhCC
Confidence            688988888888888776665

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=98.07  E-value=1.2e-05  Score=84.09  Aligned_cols=155  Identities=21%  Similarity=0.199  Sum_probs=99.0

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCCh
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSN  280 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~  280 (455)
                      ..+..++|....-+++.+.+......           .-.||++|++||||-.+|++|.+..   +.+|+.++|..+-. 
T Consensus       138 ~~~~~liG~S~am~~l~~~i~kvA~s-----------~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~-  205 (464)
T COG2204         138 SLGGELVGESPAMQQLRRLIAKVAPS-----------DASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPE-  205 (464)
T ss_pred             cccCCceecCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCH-
Confidence            35678899888888888877654333           4589999999999999999999987   46999999998732 


Q ss_pred             HHHHH-HHH-----------------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhh-cccccCC-
Q 047029          281 SDLRR-LLV-----------------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVD-GLWSSCG-  340 (455)
Q Consensus       281 ~~l~~-ll~-----------------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ld-g~~~~~~-  340 (455)
                      .-+.. +|-                 +..++..||||||..+..                .....||..+. +-...-| 
T Consensus       206 ~l~ESELFGhekGAFTGA~~~r~G~fE~A~GGTLfLDEI~~mpl----------------~~Q~kLLRvLqe~~~~rvG~  269 (464)
T COG2204         206 NLLESELFGHEKGAFTGAITRRIGRFEQANGGTLFLDEIGEMPL----------------ELQVKLLRVLQEREFERVGG  269 (464)
T ss_pred             HHHHHHhhcccccCcCCcccccCcceeEcCCceEEeeccccCCH----------------HHHHHHHHHHHcCeeEecCC
Confidence            22333 332                 112467999999997632                33445666554 2222222 


Q ss_pred             -----CceEEEEEcCCC--C-----CCCccccCCCceeEEEEeCCCCHHHH----HHHHHHhhcc
Q 047029          341 -----DERIIVFTTNYK--E-----RLDPALLRPGRMDMHIHMSYLTPGGF----KILAFNYLKI  389 (455)
Q Consensus       341 -----~~~ivI~TTN~~--~-----~Ld~allRpGR~d~~I~~~~p~~~~~----~~L~~~~l~~  389 (455)
                           -++-||++||..  +     .+=+.|.-  |+. ++.+..|.-.+|    --|+.+|+..
T Consensus       270 ~~~i~vdvRiIaaT~~dL~~~v~~G~FReDLyy--RLn-V~~i~iPpLRER~EDIp~L~~hfl~~  331 (464)
T COG2204         270 NKPIKVDVRIIAATNRDLEEEVAAGRFREDLYY--RLN-VVPLRLPPLRERKEDIPLLAEHFLKR  331 (464)
T ss_pred             CcccceeeEEEeecCcCHHHHHHcCCcHHHHHh--hhc-cceecCCcccccchhHHHHHHHHHHH
Confidence                 245699999863  1     12222222  442 345555555554    3566666653

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=98.05  E-value=0.00012  Score=75.78  Aligned_cols=159  Identities=19%  Similarity=0.117  Sum_probs=98.7

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEeccccCChH
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELASLRSNS  281 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~~~~~~~  281 (455)
                      .++.|-+.....+.+++...+..         .-...+++.|-||||||.+..-+-..+     ....++++|.++....
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle~---------~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~  220 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLEL---------NTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEAS  220 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhhc---------ccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchH
Confidence            45666655555555555443332         225679999999999999888665554     2355788888753211


Q ss_pred             ---------------------HHHHHHHh----hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc
Q 047029          282 ---------------------DLRRLLVS----TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW  336 (455)
Q Consensus       282 ---------------------~l~~ll~~----~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~  336 (455)
                                           +..+.|..    .+.+-|+++||+|.+..             ..+.++-. |-.++.+ 
T Consensus       221 aiF~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~t-------------r~~~vLy~-lFewp~l-  285 (529)
T KOG2227|consen  221 AIFKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLIT-------------RSQTVLYT-LFEWPKL-  285 (529)
T ss_pred             HHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhh-------------cccceeee-ehhcccC-
Confidence                                 11222211    12367999999999863             11112211 2222332 


Q ss_pred             ccCCCceEEEEEcCCCCCCCccccC----CCceeEEEEeCCCCHHHHHHHHHHhhcccC
Q 047029          337 SSCGDERIIVFTTNYKERLDPALLR----PGRMDMHIHMSYLTPGGFKILAFNYLKIKS  391 (455)
Q Consensus       337 ~~~~~~~ivI~TTN~~~~Ld~allR----pGR~d~~I~~~~p~~~~~~~L~~~~l~~~~  391 (455)
                        ....+++|+..|..|.=|..|-|    -+.-...+.|++.+.++..+|++.-+....
T Consensus       286 --p~sr~iLiGiANslDlTdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~  342 (529)
T KOG2227|consen  286 --PNSRIILIGIANSLDLTDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEES  342 (529)
T ss_pred             --CcceeeeeeehhhhhHHHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhccc
Confidence              23557888899987765554432    334456789999999999999998887653

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=98.03  E-value=2.4e-05  Score=87.74  Aligned_cols=168  Identities=20%  Similarity=0.261  Sum_probs=108.4

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHH-hHHHHhhhcCCC-Cc-eeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVK-RREFYSRVGKAW-KR-GYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR  278 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~-~~~~~~~~g~~~-~r-g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~  278 (455)
                      .|.....+.+.......+.+.+..+-+ .+..|..-+... .. .+|++||||.|||+.+.+.|..+|+.++..+.+...
T Consensus       315 ~p~~~k~~~~~~~~~~~~~~~l~~~k~~~~~sy~~~~~~ss~~~~~l~~G~pGigKT~~~h~~~k~~g~~v~E~Nas~~R  394 (871)
T KOG1968|consen  315 QPTSSKALEGNASSSKKASKWLAKSKDKEKSSYKENEPDSSKKKALLLSGPPGIGKTTAAHKAAKELGFKVVEKNASDVR  394 (871)
T ss_pred             ccccHHhhhcccchhhhhhhHHHhhhccccccccccCcchhhHHHHHhcCCCCCCchhhHhhhhhhcccceeecCccccc
Confidence            344456777766666666666665411 112222222111 12 369999999999999999999999999999999887


Q ss_pred             ChHHHHHHHHhhC--------------------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc
Q 047029          279 SNSDLRRLLVSTG--------------------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS  338 (455)
Q Consensus       279 ~~~~l~~ll~~~~--------------------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~  338 (455)
                      +...+...+....                    ...||++||+|-++. ..         ...-..++++...       
T Consensus       395 Sk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~devD~~~~-~d---------Rg~v~~l~~l~~k-------  457 (871)
T KOG1968|consen  395 SKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILMDEVDGMFG-ED---------RGGVSKLSSLCKK-------  457 (871)
T ss_pred             cccHHHhhhhccccccchhhhhcccccccccccceeEEEEeccccccc-hh---------hhhHHHHHHHHHh-------
Confidence            7666655543321                    124999999998753 11         1111223333331       


Q ss_pred             CCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          339 CGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       339 ~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                        ..+-+|+|+|.........+.  |-+.-++|+.|+.++...-+..++..+
T Consensus       458 --s~~Piv~~cndr~~p~sr~~~--~~~~~l~f~kP~~~~i~~ri~si~~se  505 (871)
T KOG1968|consen  458 --SSRPLVCTCNDRNLPKSRALS--RACSDLRFSKPSSELIRSRIMSICKSE  505 (871)
T ss_pred             --ccCCeEEEecCCCCccccchh--hhcceeeecCCcHHHHHhhhhhhhccc
Confidence              235689999987776654444  544779999999999877777666544

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.99  E-value=3.6e-05  Score=72.46  Aligned_cols=40  Identities=23%  Similarity=0.392  Sum_probs=33.1

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELAS  276 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~  276 (455)
                      |++...-++++||||||||+++..+|...   +..++.++...
T Consensus         8 Gi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~   50 (209)
T TIGR02237         8 GVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG   50 (209)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            67777889999999999999999988654   66777777754

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

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.99  E-value=1.4e-05  Score=76.15  Aligned_cols=104  Identities=21%  Similarity=0.253  Sum_probs=54.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc-------------c---CChHHHHHHHHhh----CCceEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS-------------L---RSNSDLRRLLVST----GNRSILVIED  300 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~-------------~---~~~~~l~~ll~~~----~~~~IL~iDE  300 (455)
                      +..+|+||+||+|||++|+.+++.  .-++..+.+.             +   ..-..+.+.+...    ....+||||.
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~~~--~~~~~~d~~~~~l~g~~~~~v~~~d~~~~~~~~~d~l~~~~~~~~~ydtVVIDs   89 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLPGK--TLVLSFDMSSKVLIGDENVDIADHDDMPPIQAMVEFYVMQNIQAVKYDNIVIDN   89 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcCCC--CEEEeccccchhccCCCCCceeecCCCCCHHHHHHHHHHHHhccccCCEEEEec
Confidence            456999999999999999999742  1122222211             0   1112333333222    2467999999


Q ss_pred             ccchhhhh----hhcCCCCC-CCCcchhhHhhhhhhhhcccccCCCceEEEE
Q 047029          301 IDCSIELE----NRQCGGGY-DENNSQVTLSGLLNFVDGLWSSCGDERIIVF  347 (455)
Q Consensus       301 iD~l~~~~----~~~~~~~~-~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~  347 (455)
                      |+.+...-    .+...... ........-..+++.+..+.+ .+.++++++
T Consensus        90 I~~l~~~~~~~~~r~~k~~~~~~~~yg~~~~~fl~~l~~L~~-~g~nII~tA  140 (220)
T TIGR01618        90 ISALQNLWLENIGRAAKNGQPELQHYQKLDLWFLDLLTVLKE-SNKNIYATA  140 (220)
T ss_pred             HHHHHHHHHHHHhhhcCCCCcccccHHHHHHHHHHHHHHHHh-CCCcEEEEE
Confidence            99764311    22211111 111223334456666666644 344555555

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

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

Probab=97.98  E-value=5.2e-05  Score=75.06  Aligned_cols=149  Identities=15%  Similarity=0.193  Sum_probs=83.2

Q ss_pred             HHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---------CCcEEEEeccccCChHHHH-HH
Q 047029          217 QALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---------KFDIYDMELASLRSNSDLR-RL  286 (455)
Q Consensus       217 ~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---------~~~v~~l~~~~~~~~~~l~-~l  286 (455)
                      +++++.+...+..|.      ..-..++||+|++|.|||++++..+...         ..+++.+....--+...+- .+
T Consensus        43 ~~~L~~L~~Ll~~P~------~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~I  116 (302)
T PF05621_consen   43 KEALDRLEELLEYPK------RHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAI  116 (302)
T ss_pred             HHHHHHHHHHHhCCc------ccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHH
Confidence            456666776666653      1223589999999999999999999765         2466666654332221111 11


Q ss_pred             H-----------------------HhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCce
Q 047029          287 L-----------------------VSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER  343 (455)
Q Consensus       287 l-----------------------~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~  343 (455)
                      +                       ...-+..+|+|||++.++..          ..   .....++|.+-.+.....=.+
T Consensus       117 L~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaG----------s~---~~qr~~Ln~LK~L~NeL~ipi  183 (302)
T PF05621_consen  117 LEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAG----------SY---RKQREFLNALKFLGNELQIPI  183 (302)
T ss_pred             HHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcc----------cH---HHHHHHHHHHHHHhhccCCCe
Confidence            1                       12234579999999987641          11   112344454444422222223


Q ss_pred             EEEEEcC--CCCCCCccccCCCceeEEEEeCC-CCHHHHHHHHHHhh
Q 047029          344 IIVFTTN--YKERLDPALLRPGRMDMHIHMSY-LTPGGFKILAFNYL  387 (455)
Q Consensus       344 ivI~TTN--~~~~Ld~allRpGR~d~~I~~~~-p~~~~~~~L~~~~l  387 (455)
                      +.|+|-.  ..=.-|+-+-+  ||+. +.+|. -.-+++..|+..+-
T Consensus       184 V~vGt~~A~~al~~D~QLa~--RF~~-~~Lp~W~~d~ef~~LL~s~e  227 (302)
T PF05621_consen  184 VGVGTREAYRALRTDPQLAS--RFEP-FELPRWELDEEFRRLLASFE  227 (302)
T ss_pred             EEeccHHHHHHhccCHHHHh--ccCC-ccCCCCCCCcHHHHHHHHHH
Confidence            3343332  22234677777  9964 44543 33345666666554

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

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=97.97  E-value=4e-05  Score=80.39  Aligned_cols=87  Identities=18%  Similarity=0.210  Sum_probs=59.4

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHHH
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDLR  284 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l~  284 (455)
                      .+.+.......+.+.+..+.           .....++++|.+||||+++++++....   +.+++.++|..+.. ..+.
T Consensus       140 ~lig~s~~~~~~~~~i~~~~-----------~~~~~vli~ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~-~~~~  207 (441)
T PRK10365        140 GMVGKSPAMQHLLSEIALVA-----------PSEATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNE-SLLE  207 (441)
T ss_pred             ceEecCHHHHHHHHHHhhcc-----------CCCCeEEEEecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCH-HHHH
Confidence            34555555555555553221           124679999999999999999998766   46899999997643 4444


Q ss_pred             HHHHh------------------hCCceEEEEecccchhh
Q 047029          285 RLLVS------------------TGNRSILVIEDIDCSIE  306 (455)
Q Consensus       285 ~ll~~------------------~~~~~IL~iDEiD~l~~  306 (455)
                      ..+..                  ...+++||||||+.+..
T Consensus       208 ~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~ldei~~l~~  247 (441)
T PRK10365        208 SELFGHEKGAFTGADKRREGRFVEADGGTLFLDEIGDISP  247 (441)
T ss_pred             HHhcCCCCCCcCCCCcCCCCceeECCCCEEEEeccccCCH
Confidence            43321                  12467899999998853

>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=97.95  E-value=6.8e-06  Score=70.23  Aligned_cols=31  Identities=39%  Similarity=0.738  Sum_probs=27.7

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      |++.||||+||||+++.+|+.+|+.++.++-
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~i~~d~   32 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPVISMDD   32 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEEEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEEecc
Confidence            7899999999999999999999988776653

...

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.94  E-value=1.8e-05  Score=84.33  Aligned_cols=65  Identities=20%  Similarity=0.305  Sum_probs=50.4

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-CCcEEEEec
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-KFDIYDMEL  274 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-~~~v~~l~~  274 (455)
                      ..-|+++.|.++++++|++.+.....+      + ...++-++|.||||+|||+|+++||+.+ .+++|.+..
T Consensus        72 y~fF~d~yGlee~ieriv~~l~~Aa~g------l-~~~~~IL~LvGPpG~GKSsLa~~la~~le~~~~Y~~kg  137 (644)
T PRK15455         72 YPAFEEFYGMEEAIEQIVSYFRHAAQG------L-EEKKQILYLLGPVGGGKSSLAERLKSLMERVPIYVLKA  137 (644)
T ss_pred             ccchhcccCcHHHHHHHHHHHHHHHHh------c-CCCCceEEEecCCCCCchHHHHHHHHHHHhCcceeecC
Confidence            345889999999999999877644432      1 1235678999999999999999999988 567776644

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=97.93  E-value=2.4e-05  Score=81.38  Aligned_cols=91  Identities=18%  Similarity=0.227  Sum_probs=68.7

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCC
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRS  279 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~  279 (455)
                      ...+..++|....-.++++.++.....           .-.|||.|..||||..+|++|.+..   +.+++.+||..+- 
T Consensus       219 ~~~~~~iIG~S~am~~ll~~i~~VA~S-----------d~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlP-  286 (550)
T COG3604         219 VLEVGGIIGRSPAMRQLLKEIEVVAKS-----------DSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALP-  286 (550)
T ss_pred             hcccccceecCHHHHHHHHHHHHHhcC-----------CCeEEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccc-
Confidence            346788999999988898888754433           4589999999999999999999987   5789999998872 


Q ss_pred             hHHHH-HHH-----------------HhhCCceEEEEecccchh
Q 047029          280 NSDLR-RLL-----------------VSTGNRSILVIEDIDCSI  305 (455)
Q Consensus       280 ~~~l~-~ll-----------------~~~~~~~IL~iDEiD~l~  305 (455)
                      ++-+. ++|                 .+..++.-||+|||..+.
T Consensus       287 esLlESELFGHeKGAFTGA~~~r~GrFElAdGGTLFLDEIGelP  330 (550)
T COG3604         287 ESLLESELFGHEKGAFTGAINTRRGRFELADGGTLFLDEIGELP  330 (550)
T ss_pred             hHHHHHHHhcccccccccchhccCcceeecCCCeEechhhccCC
Confidence            11121 122                 122356799999999764

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=97.90  E-value=4e-05  Score=75.19  Aligned_cols=92  Identities=16%  Similarity=0.202  Sum_probs=60.9

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-----cEEE-----Eecccc
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-----DIYD-----MELASL  277 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-----~v~~-----l~~~~~  277 (455)
                      .|.|++-+++.|+..+..++.++.      -..|--+=|||++||||+..++.||+.+-.     +++.     .++..-
T Consensus        83 ~lfGQHla~~~Vv~alk~~~~n~~------p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~  156 (344)
T KOG2170|consen   83 ALFGQHLAKQLVVNALKSHWANPN------PRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHA  156 (344)
T ss_pred             HhhchHHHHHHHHHHHHHHhcCCC------CCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCCh
Confidence            578899999999999999887753      111335678899999999999999998721     1111     111111


Q ss_pred             CC----hHHHHHHHHh---hCCceEEEEecccchh
Q 047029          278 RS----NSDLRRLLVS---TGNRSILVIEDIDCSI  305 (455)
Q Consensus       278 ~~----~~~l~~ll~~---~~~~~IL~iDEiD~l~  305 (455)
                      ..    ..+|+..+..   ...++|+++||+|.+-
T Consensus       157 ~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp  191 (344)
T KOG2170|consen  157 SKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKLP  191 (344)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCceEEechhhhcC
Confidence            11    1233333322   2468999999999874

>COG1485 Predicted ATPase [General function prediction only]

Probab=97.89  E-value=1.8e-05  Score=79.35  Aligned_cols=98  Identities=18%  Similarity=0.292  Sum_probs=59.3

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcCCcE-EEEecccc-----------CCh-HHHHHHHHhh-CCceEEEEecccch
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDI-YDMELASL-----------RSN-SDLRRLLVST-GNRSILVIEDIDCS  304 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~~~v-~~l~~~~~-----------~~~-~~l~~ll~~~-~~~~IL~iDEiD~l  304 (455)
                      .+++|++||||-|+|||+|....-..+...- ..+.....           .+. ..+..+-.+. .+-.||+|||+.--
T Consensus        63 ~~~~GlYl~GgVGrGKT~LMD~Fy~~lp~~~k~R~HFh~FM~~vH~~l~~l~g~~dpl~~iA~~~~~~~~vLCfDEF~Vt  142 (367)
T COG1485          63 GPVRGLYLWGGVGRGKTMLMDLFYESLPGERKRRLHFHRFMARVHQRLHTLQGQTDPLPPIADELAAETRVLCFDEFEVT  142 (367)
T ss_pred             CCCceEEEECCCCccHHHHHHHHHhhCCccccccccHHHHHHHHHHHHHHHcCCCCccHHHHHHHHhcCCEEEeeeeeec
Confidence            4578999999999999999999888774321 11111110           010 1111111111 23469999999742


Q ss_pred             hhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCC-CCCC
Q 047029          305 IELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY-KERL  355 (455)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~-~~~L  355 (455)
                                   +-.....++.|++.+-.      .++++|+|+|. |+.|
T Consensus       143 -------------DI~DAMiL~rL~~~Lf~------~GV~lvaTSN~~P~~L  175 (367)
T COG1485         143 -------------DIADAMILGRLLEALFA------RGVVLVATSNTAPDNL  175 (367)
T ss_pred             -------------ChHHHHHHHHHHHHHHH------CCcEEEEeCCCChHHh
Confidence                         22345677777777543      46899999994 4443

>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot)

Probab=97.86  E-value=6.5e-05  Score=70.27  Aligned_cols=114  Identities=18%  Similarity=0.252  Sum_probs=59.7

Q ss_pred             eEEECCCCCChHHHHHHH-HHHc---CCcEEEEeccccC-----C---------------------hHHHHHHHHhhCCc
Q 047029          244 YLLYGPPGTGKSSLIAAM-ANYL---KFDIYDMELASLR-----S---------------------NSDLRRLLVSTGNR  293 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~al-A~~l---~~~v~~l~~~~~~-----~---------------------~~~l~~ll~~~~~~  293 (455)
                      ++++|.||+|||..|-.. ....   |.+++. +...+.     .                     ...+ ........+
T Consensus         3 ~~~~G~pGsGKS~~av~~~i~~~l~~gr~V~t-ni~gL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~   80 (193)
T PF05707_consen    3 YLITGKPGSGKSYYAVSYVIIPALKKGRPVYT-NIPGLNIEKIQPVLGYDIPTRLIDLSDPDFEEDWDDP-DDWRKLPKG   80 (193)
T ss_dssp             EEEE--TTSSHHHHHHHHHHH-GGGS---EEE---TTB-S--EEEE--TTT-S-----S--SSSEEGGGH-HHHTTSGTT
T ss_pred             EEEEcCCCCcHhHHHHHHHHHHHHhCCCEEEE-ccCCcchhhhhhhccccccccccccccccchhhhhhh-hhhcccCCC
Confidence            688999999999887655 4332   556554 433221     0                     0111 122223368


Q ss_pred             eEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCC
Q 047029          294 SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSY  373 (455)
Q Consensus       294 ~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~  373 (455)
                      +||+|||+...++.+...          .......++++....   -.+.-||++|-++..||+.+++  +++.++++..
T Consensus        81 ~liviDEa~~~~~~r~~~----------~~~~~~~~~~l~~hR---h~g~diiliTQ~~~~id~~ir~--lve~~~~~~k  145 (193)
T PF05707_consen   81 SLIVIDEAQNFFPSRSWK----------GKKVPEIIEFLAQHR---HYGWDIILITQSPSQIDKFIRD--LVEYHYHCRK  145 (193)
T ss_dssp             -EEEETTGGGTSB---T-----------T----HHHHGGGGCC---CTT-EEEEEES-GGGB-HHHHC--CEEEEEEEEE
T ss_pred             cEEEEECChhhcCCCccc----------cccchHHHHHHHHhC---cCCcEEEEEeCCHHHHhHHHHH--HHheEEEEEe
Confidence            999999999987622110          001122334443221   2457789999999999999987  9999988765


Q ss_pred             C
Q 047029          374 L  374 (455)
Q Consensus       374 p  374 (455)
                      +
T Consensus       146 ~  146 (193)
T PF05707_consen  146 L  146 (193)
T ss_dssp             -
T ss_pred             e
Confidence            4

Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.85  E-value=1.6e-05  Score=72.11  Aligned_cols=35  Identities=29%  Similarity=0.379  Sum_probs=31.2

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +++..++|+||||||||++++++|+.+++++++.+
T Consensus         2 ~~~~~i~l~G~~GsGKstla~~La~~l~~~~~d~d   36 (175)
T PRK00131          2 LKGPNIVLIGFMGAGKSTIGRLLAKRLGYDFIDTD   36 (175)
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            34678999999999999999999999999888654

>PRK07261 topology modulation protein; Provisional

Probab=97.85  E-value=3.3e-05  Score=70.90  Aligned_cols=100  Identities=15%  Similarity=0.223  Sum_probs=61.5

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchh
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQV  323 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~  323 (455)
                      +++.|+||+||||+++.++..++.+++.+|.-.....              .   .+.                      
T Consensus         3 i~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~--------------~---~~~----------------------   43 (171)
T PRK07261          3 IAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPN--------------W---QER----------------------   43 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccc--------------c---ccC----------------------
Confidence            7899999999999999999999988776553221100              0   000                      


Q ss_pred             hHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          324 TLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       324 ~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      ....++..++....   .+. .|+-.|+...+-+..+.  ++|..|.+..|.......++++.+.
T Consensus        44 ~~~~~~~~~~~~~~---~~~-wIidg~~~~~~~~~~l~--~ad~vI~Ld~p~~~~~~R~lkR~~~  102 (171)
T PRK07261         44 DDDDMIADISNFLL---KHD-WIIDGNYSWCLYEERMQ--EADQIIFLNFSRFNCLYRAFKRYLK  102 (171)
T ss_pred             CHHHHHHHHHHHHh---CCC-EEEcCcchhhhHHHHHH--HCCEEEEEcCCHHHHHHHHHHHHHH
Confidence            01112222222211   123 44555554433344445  7899999999998888888888764

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=97.85  E-value=0.00014  Score=75.19  Aligned_cols=60  Identities=22%  Similarity=0.359  Sum_probs=40.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc----CCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccch
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCS  304 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l  304 (455)
                      +.++++.||+|||||+++.+++.+.    |   .......+-.+- -.+.+.......+|+|||+..+
T Consensus       209 ~~Nli~lGp~GTGKThla~~l~~~~a~~sG---~f~T~a~Lf~~L-~~~~lg~v~~~DlLI~DEvgyl  272 (449)
T TIGR02688       209 NYNLIELGPKGTGKSYIYNNLSPYVILISG---GTITVAKLFYNI-STRQIGLVGRWDVVAFDEVATL  272 (449)
T ss_pred             CCcEEEECCCCCCHHHHHHHHhHHHHHHcC---CcCcHHHHHHHH-HHHHHhhhccCCEEEEEcCCCC
Confidence            5699999999999999999998872    3   111122211100 0133444567899999999975

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.83  E-value=4.9e-05  Score=78.02  Aligned_cols=104  Identities=20%  Similarity=0.294  Sum_probs=64.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc----C-CcEEEEecccc----------------------CChHHHHHHHHhhCCc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL----K-FDIYDMELASL----------------------RSNSDLRRLLVSTGNR  293 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l----~-~~v~~l~~~~~----------------------~~~~~l~~ll~~~~~~  293 (455)
                      +..++|.||+|+||||++..||..+    | ..+..+.....                      ....++...+....+.
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~  216 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNK  216 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCC
Confidence            4579999999999999999999864    3 23433333221                      2334566666667778


Q ss_pred             eEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCcccc
Q 047029          294 SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALL  360 (455)
Q Consensus       294 ~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~all  360 (455)
                      .+|+||......               ....+.+.+..+.+.... -...+|+-+|+..+.++..+.
T Consensus       217 DlVLIDTaG~~~---------------~d~~l~e~La~L~~~~~~-~~~lLVLsAts~~~~l~evi~  267 (374)
T PRK14722        217 HMVLIDTIGMSQ---------------RDRTVSDQIAMLHGADTP-VQRLLLLNATSHGDTLNEVVQ  267 (374)
T ss_pred             CEEEEcCCCCCc---------------ccHHHHHHHHHHhccCCC-CeEEEEecCccChHHHHHHHH
Confidence            999999997531               123355556666543221 122445556667766665443

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.83  E-value=7.4e-05  Score=67.13  Aligned_cols=25  Identities=32%  Similarity=0.599  Sum_probs=22.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .--+.+.||||+||||++.-+|+.|
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHH
Confidence            3468999999999999999999888

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.81  E-value=0.00028  Score=73.01  Aligned_cols=65  Identities=26%  Similarity=0.456  Sum_probs=45.3

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcC-------CcEEEEecccc----------------------CChHHHHHHHHhh
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLK-------FDIYDMELASL----------------------RSNSDLRRLLVST  290 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~-------~~v~~l~~~~~----------------------~~~~~l~~ll~~~  290 (455)
                      .++.++|+||+|+||||++.-+|..+.       ..+..+.+...                      .....+.+.+...
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            456799999999999999999998762       33333332221                      1234555656666


Q ss_pred             CCceEEEEecccch
Q 047029          291 GNRSILVIEDIDCS  304 (455)
Q Consensus       291 ~~~~IL~iDEiD~l  304 (455)
                      ....+|+||.++.+
T Consensus       253 ~~~DlVLIDTaGr~  266 (388)
T PRK12723        253 KDFDLVLVDTIGKS  266 (388)
T ss_pred             CCCCEEEEcCCCCC
Confidence            67789999999865

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=97.78  E-value=2.6e-05  Score=85.14  Aligned_cols=163  Identities=17%  Similarity=0.141  Sum_probs=92.7

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhc-CCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc----cC---
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVG-KAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS----LR---  278 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g-~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~----~~---  278 (455)
                      .++.|.+++|+.|.=.|-  -.-+....+-+ +...-++||.|.||||||.|.+.+++.+...+|.---++    +.   
T Consensus       286 PsIyG~e~VKkAilLqLf--gGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aPr~vytsgkgss~~GLTAav  363 (682)
T COG1241         286 PSIYGHEDVKKAILLQLF--GGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAPRGVYTSGKGSSAAGLTAAV  363 (682)
T ss_pred             ccccCcHHHHHHHHHHhc--CCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCCceEEEccccccccCceeEE
Confidence            356677777777643321  11000000000 111235999999999999999999999987777532211    10   


Q ss_pred             -ChHHHHHHHHh-----hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhc---------ccccCCCce
Q 047029          279 -SNSDLRRLLVS-----TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDG---------LWSSCGDER  343 (455)
Q Consensus       279 -~~~~l~~ll~~-----~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg---------~~~~~~~~~  343 (455)
                       ......+...+     ...++|.+|||+|.+-.                .....+...|+.         +...-+...
T Consensus       364 ~rd~~tge~~LeaGALVlAD~Gv~cIDEfdKm~~----------------~dr~aihEaMEQQtIsIaKAGI~atLnARc  427 (682)
T COG1241         364 VRDKVTGEWVLEAGALVLADGGVCCIDEFDKMNE----------------EDRVAIHEAMEQQTISIAKAGITATLNARC  427 (682)
T ss_pred             EEccCCCeEEEeCCEEEEecCCEEEEEeccCCCh----------------HHHHHHHHHHHhcEeeecccceeeecchhh
Confidence             00101111111     13578999999997632                223445555552         111112233


Q ss_pred             EEEEEcCCCC-------------CCCccccCCCceeEEEEe-CCCCHHHHHHHHHHhhcc
Q 047029          344 IIVFTTNYKE-------------RLDPALLRPGRMDMHIHM-SYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       344 ivI~TTN~~~-------------~Ld~allRpGR~d~~I~~-~~p~~~~~~~L~~~~l~~  389 (455)
                      -|++++|++.             .|+++|+.  |||+..-+ ..|+++.=+.++.+.+..
T Consensus       428 svLAAaNP~~Gryd~~~~~~enI~l~~~lLS--RFDLifvl~D~~d~~~D~~ia~hil~~  485 (682)
T COG1241         428 SVLAAANPKFGRYDPKKTVAENINLPAPLLS--RFDLIFVLKDDPDEEKDEEIAEHILDK  485 (682)
T ss_pred             hhhhhhCCCCCcCCCCCCHHHhcCCChhHHh--hCCeeEEecCCCCccchHHHHHHHHHH
Confidence            4788888764             37889999  99987655 567776555555555543

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.76  E-value=0.00011  Score=70.53  Aligned_cols=23  Identities=35%  Similarity=0.537  Sum_probs=21.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -+-|.||+|||||||.+.+|...
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48899999999999999999876

>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=97.75  E-value=0.00065  Score=70.22  Aligned_cols=83  Identities=23%  Similarity=0.332  Sum_probs=54.2

Q ss_pred             EEEEEcC--CCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccC---------------------CCchHHHHH
Q 047029          344 IIVFTTN--YKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKS---------------------HSMFDEIEE  400 (455)
Q Consensus       344 ivI~TTN--~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~---------------------~~l~~ei~~  400 (455)
                      +|+.|++  ....|..||-.  |.-..|.++.++++.-+......|+...                     .....++..
T Consensus       186 VIFlT~dv~~~k~LskaLPn--~vf~tI~L~Das~~~Ak~yV~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~  263 (431)
T PF10443_consen  186 VIFLTDDVSYSKPLSKALPN--RVFKTISLSDASPESAKQYVLSQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDE  263 (431)
T ss_pred             EEEECCCCchhhhHHHhCCC--CceeEEeecCCCHHHHHHHHHHHhcccccccccccccccccccccccccccchHHHHH
Confidence            3444444  33456666644  7778999999999999998888886541                     124456666


Q ss_pred             hhcc--ccCchhHHHh----ccCCHHHHHHHHHH
Q 047029          401 LIKE--VEVTPAEEFM----KSEDADVALNGLVD  428 (455)
Q Consensus       401 ll~~--~~~tpa~~l~----~~~~~~~al~~l~~  428 (455)
                      .+..  ..++-.+.++    ...+|+.|++++++
T Consensus       264 ~i~~LGGRltDLe~lvrRiksGe~p~~Av~~iI~  297 (431)
T PF10443_consen  264 CIEPLGGRLTDLEFLVRRIKSGESPEEAVEEIIS  297 (431)
T ss_pred             HHHHcCCcHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            6553  2334334333    46899999998875

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 [].

>PRK08118 topology modulation protein; Reviewed

Probab=97.75  E-value=5.5e-05  Score=69.19  Aligned_cols=32  Identities=25%  Similarity=0.485  Sum_probs=29.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      .+++.||||+||||+++.|++.++.+++.++.
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~   34 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDA   34 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecch
Confidence            58999999999999999999999999988874

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.74  E-value=0.00034  Score=72.84  Aligned_cols=132  Identities=16%  Similarity=0.123  Sum_probs=79.1

Q ss_pred             hhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcE-EEEeccccCChHHHHH---HHHhhC--CceEEEEecccchhhhh
Q 047029          235 RVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDI-YDMELASLRSNSDLRR---LLVSTG--NRSILVIEDIDCSIELE  308 (455)
Q Consensus       235 ~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v-~~l~~~~~~~~~~l~~---ll~~~~--~~~IL~iDEiD~l~~~~  308 (455)
                      .....++ -++++||.+||||++++-+...+.-.+ +...+........+.+   .+....  .+..||||||.++-   
T Consensus        32 ~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~~~~iy~~~~d~~~~~~~l~d~~~~~~~~~~~~~~yifLDEIq~v~---  107 (398)
T COG1373          32 KLDLRPF-IILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRIELLDLLRAYIELKEREKSYIFLDEIQNVP---  107 (398)
T ss_pred             hcccCCc-EEEEECCccccHHHHHHHHHhhCCcceEEEEecchhcchhhHHHHHHHHHHhhccCCceEEEecccCch---
Confidence            3344444 899999999999999988888875543 3333333333333322   222222  44899999999863   


Q ss_pred             hhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC-CCCccccCCCceeEEEEeCCCCHHHHHH------
Q 047029          309 NRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE-RLDPALLRPGRMDMHIHMSYLTPGGFKI------  381 (455)
Q Consensus       309 ~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~-~Ld~allRpGR~d~~I~~~~p~~~~~~~------  381 (455)
                                 .....+..+.+.   .     ...++|.++|..- ....+-.=+||. ..+++.+.++.++..      
T Consensus       108 -----------~W~~~lk~l~d~---~-----~~~v~itgsss~ll~~~~~~~L~GR~-~~~~l~PlSF~Efl~~~~~~~  167 (398)
T COG1373         108 -----------DWERALKYLYDR---G-----NLDVLITGSSSSLLSKEISESLAGRG-KDLELYPLSFREFLKLKGEEI  167 (398)
T ss_pred             -----------hHHHHHHHHHcc---c-----cceEEEECCchhhhccchhhhcCCCc-eeEEECCCCHHHHHhhccccc
Confidence                       223333333332   1     1135555555432 222333446794 789999999999854      


Q ss_pred             -------HHHHhhccc
Q 047029          382 -------LAFNYLKIK  390 (455)
Q Consensus       382 -------L~~~~l~~~  390 (455)
                             ++..|+...
T Consensus       168 ~~~~~~~~f~~Yl~~G  183 (398)
T COG1373         168 EPSKLELLFEKYLETG  183 (398)
T ss_pred             chhHHHHHHHHHHHhC
Confidence                   677777654

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.74  E-value=0.00036  Score=65.45  Aligned_cols=64  Identities=22%  Similarity=0.421  Sum_probs=40.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC----------ChHHHHHHHHhh-----------CCceEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR----------SNSDLRRLLVST-----------GNRSIL  296 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~----------~~~~l~~ll~~~-----------~~~~IL  296 (455)
                      .+-.++.||||||||+++++++..+   +..++.+..+.-.          ....+..++...           .+..+|
T Consensus        18 ~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~~~~~a~Ti~~~l~~~~~~~~~~~~~~~~~~vl   97 (196)
T PF13604_consen   18 DRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREKTGIEAQTIHSFLYRIPNGDDEGRPELPKKDVL   97 (196)
T ss_dssp             CSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHHTS-EEEHHHHTTEECCEECCSSCC-TSTSEE
T ss_pred             CeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHhhCcchhhHHHHHhcCCcccccccccCCcccEE
Confidence            4568899999999999999998776   5677766554321          112222332211           234799


Q ss_pred             EEecccch
Q 047029          297 VIEDIDCS  304 (455)
Q Consensus       297 ~iDEiD~l  304 (455)
                      +|||+..+
T Consensus        98 iVDEasmv  105 (196)
T PF13604_consen   98 IVDEASMV  105 (196)
T ss_dssp             EESSGGG-
T ss_pred             EEeccccc
Confidence            99999875

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=97.73  E-value=5.4e-05  Score=80.54  Aligned_cols=164  Identities=15%  Similarity=0.199  Sum_probs=103.2

Q ss_pred             CcccccCHHHHHHHHHHHHHHHHhHHHHhhhc--CCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc------
Q 047029          206 FDTLAMDPVLKQALIDDLDRFVKRREFYSRVG--KAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL------  277 (455)
Q Consensus       206 fd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g--~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~------  277 (455)
                      |..+.|.+.+|.-|.-.+   +-+-..+..-|  +...-++++.|.||||||-+.++.++.+...+|..--++-      
T Consensus       344 ~PsIyGhe~VK~GilL~L---fGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR~vYtsGkaSSaAGLTa  420 (764)
T KOG0480|consen  344 FPSIYGHELVKAGILLSL---FGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPRSVYTSGKASSAAGLTA  420 (764)
T ss_pred             CccccchHHHHhhHHHHH---hCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCcceEecCcccccccceE
Confidence            667888888888875433   22222222212  2223469999999999999999999999888876432211      


Q ss_pred             --CChHHHHHHHHhh-----CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhc---------ccccCCC
Q 047029          278 --RSNSDLRRLLVST-----GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDG---------LWSSCGD  341 (455)
Q Consensus       278 --~~~~~l~~ll~~~-----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg---------~~~~~~~  341 (455)
                        ..++.-.+...++     ....|-+|||+|.+-.             ..   .-.++++|+.         +...-+.
T Consensus       421 aVvkD~esgdf~iEAGALmLADnGICCIDEFDKMd~-------------~d---qvAihEAMEQQtISIaKAGv~aTLnA  484 (764)
T KOG0480|consen  421 AVVKDEESGDFTIEAGALMLADNGICCIDEFDKMDV-------------KD---QVAIHEAMEQQTISIAKAGVVATLNA  484 (764)
T ss_pred             EEEecCCCCceeeecCcEEEccCceEEechhcccCh-------------Hh---HHHHHHHHHhheehheecceEEeecc
Confidence              0001001111111     2467999999998621             11   2335666652         2222233


Q ss_pred             ceEEEEEcCCCC-------------CCCccccCCCceeEE-EEeCCCCHHHHHHHHHHhhccc
Q 047029          342 ERIIVFTTNYKE-------------RLDPALLRPGRMDMH-IHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       342 ~~ivI~TTN~~~-------------~Ld~allRpGR~d~~-I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      ..-|++++|+..             .+++++++  |||.. |-++.|++..=..|+++.+..+
T Consensus       485 RtSIlAAANPv~GhYdR~ktl~eNi~msApimS--RFDL~FiLlD~~nE~~D~~ia~hIld~h  545 (764)
T KOG0480|consen  485 RTSILAAANPVGGHYDRKKTLRENINMSAPIMS--RFDLFFILLDDCNEVVDYAIARHILDLH  545 (764)
T ss_pred             hhhhhhhcCCcCCccccccchhhhcCCCchhhh--hhcEEEEEecCCchHHHHHHHHHHHHHh
Confidence            345888888662             47899999  99965 5678999998888888887653

>cd01394 radB RadB

Probab=97.72  E-value=0.00024  Score=67.43  Aligned_cols=38  Identities=26%  Similarity=0.405  Sum_probs=31.0

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      |++..+-++++||||||||+++..+|...   +.+++.++.
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~   55 (218)
T cd01394          15 GVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDT   55 (218)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence            67777779999999999999999999765   556666654

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

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.71  E-value=0.00021  Score=68.15  Aligned_cols=39  Identities=23%  Similarity=0.378  Sum_probs=32.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      |++...-++++||||+|||+++..+|...   +..++.++..
T Consensus        19 Gi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e   60 (225)
T PRK09361         19 GFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE   60 (225)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            67777779999999999999999999755   6777777766

>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=97.71  E-value=0.00028  Score=64.81  Aligned_cols=30  Identities=27%  Similarity=0.217  Sum_probs=23.6

Q ss_pred             eEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      +|++||||||||+++..++...   |..+..+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s   34 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT   34 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            6899999999999999887654   55555544

A related protein is found in archaea.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.70  E-value=0.00015  Score=68.99  Aligned_cols=104  Identities=15%  Similarity=0.250  Sum_probs=57.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH-----cCCcE---------EEEeccccCC--------------hHHHHHHHHhhCCc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY-----LKFDI---------YDMELASLRS--------------NSDLRRLLVSTGNR  293 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~-----l~~~v---------~~l~~~~~~~--------------~~~l~~ll~~~~~~  293 (455)
                      +.++|.||.|+|||++.+.++..     .|..+         ++-....+..              -..+..++.....+
T Consensus        30 ~~~~itGpNg~GKStlLk~i~~~~~la~~G~~v~a~~~~~~~~d~i~~~l~~~~si~~~~S~f~~el~~l~~~l~~~~~~  109 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVALIVFLAHIGSFVPADSATIGLVDKIFTRMSSRESVSSGQSAFMIDLYQVSKALRLATRR  109 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHHHHHHHHhCCCeeEcCCcEEeeeeeeeeeeCCccChhhccchHHHHHHHHHHHHHhCCCC
Confidence            67999999999999999999832     23221         1111111111              12333334445689


Q ss_pred             eEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccc
Q 047029          294 SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPAL  359 (455)
Q Consensus       294 ~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~al  359 (455)
                      ++++|||+..-.+           ..+.......++..+   ......+..+|++|+..+.+....
T Consensus       110 slvllDE~~~gtd-----------~~~~~~~~~ail~~l---~~~~~~~~~vli~TH~~~l~~~~~  161 (213)
T cd03281         110 SLVLIDEFGKGTD-----------TEDGAGLLIATIEHL---LKRGPECPRVIVSTHFHELFNRSL  161 (213)
T ss_pred             cEEEeccccCCCC-----------HHHHHHHHHHHHHHH---HhcCCCCcEEEEEcChHHHHHhhh
Confidence            9999999975321           111122223344443   111012357888998876655444

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

>PF14516 AAA_35: AAA-like domain

Probab=97.70  E-value=0.00061  Score=69.21  Aligned_cols=133  Identities=19%  Similarity=0.223  Sum_probs=79.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCC-----h--------------------------------
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRS-----N--------------------------------  280 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~-----~--------------------------------  280 (455)
                      ..-+.++||..+||||+...+.+.+   |+..+.+++..+.+     .                                
T Consensus        31 G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~  110 (331)
T PF14516_consen   31 GSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEISRQLKLDEKLDEYWDEEIGSK  110 (331)
T ss_pred             CCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHHHHcCCChhHHHHHHHhcCCh
Confidence            4568899999999999999998776   77888888766421     0                                


Q ss_pred             HHH----HH-HHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCC-----Cc-eEEEEEc
Q 047029          281 SDL----RR-LLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCG-----DE-RIIVFTT  349 (455)
Q Consensus       281 ~~l----~~-ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~-----~~-~ivI~TT  349 (455)
                      ..+    .+ ++....+|-||+|||||.+++.           .   .....++..+-.......     .. +++++.+
T Consensus       111 ~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~-----------~---~~~~dF~~~LR~~~~~~~~~~~~~~L~li~~~~  176 (331)
T PF14516_consen  111 ISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEY-----------P---QIADDFFGLLRSWYEQRKNNPIWQKLRLILAGS  176 (331)
T ss_pred             hhHHHHHHHHHHhcCCCCEEEEEechhhhccC-----------c---chHHHHHHHHHHHHHhcccCcccceEEEEEecC
Confidence            011    11 1122346789999999998741           1   112233333322211110     11 2333333


Q ss_pred             CCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          350 NYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       350 N~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      ..+......-..|-.+...|+++.-+.++...|++.|-
T Consensus       177 t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~  214 (331)
T PF14516_consen  177 TEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYG  214 (331)
T ss_pred             cccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhh
Confidence            22222222224555667789999999999999998874

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.69  E-value=0.00029  Score=67.75  Aligned_cols=38  Identities=26%  Similarity=0.296  Sum_probs=30.3

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      |++.+..++++||||||||+++..++...   +..++.+..
T Consensus        21 G~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~   61 (234)
T PRK06067         21 GIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITT   61 (234)
T ss_pred             CCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEc
Confidence            77888889999999999999999997553   555555543

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=97.69  E-value=0.00021  Score=81.97  Aligned_cols=140  Identities=18%  Similarity=0.237  Sum_probs=88.9

Q ss_pred             CCCCceeEEECCCCCChHHH-HHHHHHHcCCcEEEEeccccCChHHHHHHHH-hhC------------C----ceEEEEe
Q 047029          238 KAWKRGYLLYGPPGTGKSSL-IAAMANYLKFDIYDMELASLRSNSDLRRLLV-STG------------N----RSILVIE  299 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsl-a~alA~~l~~~v~~l~~~~~~~~~~l~~ll~-~~~------------~----~~IL~iD  299 (455)
                      ....|+|+++||||+|||++ .-++-+++-+.+..++.+.-.........+. .+.            +    .-|||.|
T Consensus      1491 lnt~R~~i~cGppGSgK~mlM~~sLrs~~~~ev~~~Nfs~~t~T~s~ls~Ler~t~yy~~tg~~~l~PK~~vK~lVLFcD 1570 (3164)
T COG5245        1491 LNTLRSYIYCGPPGSGKEMLMCPSLRSELITEVKYFNFSTCTMTPSKLSVLERETEYYPNTGVVRLYPKPVVKDLVLFCD 1570 (3164)
T ss_pred             HhccceEEEECCCCCccchhcchhhhhhhheeeeEEeeccccCCHHHHHHHHhhceeeccCCeEEEccCcchhheEEEee
Confidence            34478999999999999984 6788888899999999887654443444443 221            1    2489999


Q ss_pred             cccchhhhhhhcCCCCCCCCcchhh-HhhhhhhhhcccccCC------CceEEEEEcCCCCCC-----CccccCCCceeE
Q 047029          300 DIDCSIELENRQCGGGYDENNSQVT-LSGLLNFVDGLWSSCG------DERIIVFTTNYKERL-----DPALLRPGRMDM  367 (455)
Q Consensus       300 EiD~l~~~~~~~~~~~~~~~~~~~~-ls~LL~~ldg~~~~~~------~~~ivI~TTN~~~~L-----d~allRpGR~d~  367 (455)
                      ||. +..  .+.-     -.+.... +..|+. -.|+|+...      .++++++++|++...     .+.++|  | ..
T Consensus      1571 eIn-Lp~--~~~y-----~~~~vI~FlR~l~e-~QGfw~s~~~~wvTI~~i~l~Gacnp~td~gRv~~~eRf~r--~-~v 1638 (3164)
T COG5245        1571 EIN-LPY--GFEY-----YPPTVIVFLRPLVE-RQGFWSSIAVSWVTICGIILYGACNPGTDEGRVKYYERFIR--K-PV 1638 (3164)
T ss_pred             ccC-Ccc--cccc-----CCCceEEeeHHHHH-hcccccchhhhHhhhcceEEEccCCCCCCcccCccHHHHhc--C-ce
Confidence            998 321  0000     0111111 112222 245665432      447888899987542     244554  3 36


Q ss_pred             EEEeCCCCHHHHHHHHHHhhcc
Q 047029          368 HIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       368 ~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      .|++.||.-....++...++..
T Consensus      1639 ~vf~~ype~~SL~~Iyea~l~~ 1660 (3164)
T COG5245        1639 FVFCCYPELASLRNIYEAVLMG 1660 (3164)
T ss_pred             EEEecCcchhhHHHHHHHHHHH
Confidence            7899999999999888877653

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=97.67  E-value=7e-05  Score=64.89  Aligned_cols=52  Identities=15%  Similarity=0.139  Sum_probs=41.9

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .|.|++-+++.|++.+..++..+.      -..|--+-|+||||||||.+++.||+.+
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~------p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPN------PRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCC------CCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            578999999999999999887642      1112345689999999999999999986

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

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=97.64  E-value=0.00025  Score=69.55  Aligned_cols=59  Identities=22%  Similarity=0.213  Sum_probs=43.9

Q ss_pred             eEEEEEcCC------------CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhcc
Q 047029          343 RIIVFTTNY------------KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKE  404 (455)
Q Consensus       343 ~ivI~TTN~------------~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~  404 (455)
                      .++|++||+            |..++-.|+.  |+ ..|...+.+.++.++|++..+..++..+.++.-.++..
T Consensus       318 PiiimaTNrgit~iRGTn~~SphGiP~D~lD--R~-lII~t~py~~~d~~~IL~iRc~EEdv~m~~~A~d~Lt~  388 (454)
T KOG2680|consen  318 PIIIMATNRGITRIRGTNYRSPHGIPIDLLD--RM-LIISTQPYTEEDIKKILRIRCQEEDVEMNPDALDLLTK  388 (454)
T ss_pred             cEEEEEcCCceEEeecCCCCCCCCCcHHHhh--hh-heeecccCcHHHHHHHHHhhhhhhccccCHHHHHHHHH
Confidence            366666663            4678888888  88 56777777788889999988888887777776666543

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.64  E-value=0.00023  Score=66.29  Aligned_cols=64  Identities=14%  Similarity=0.133  Sum_probs=39.8

Q ss_pred             EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhccccC-----chhHHHhccCCHHHHHHHHHHHHHHhh
Q 047029          367 MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEV-----TPAEEFMKSEDADVALNGLVDFLLRKK  434 (455)
Q Consensus       367 ~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~~~~-----tpa~~l~~~~~~~~al~~l~~~l~~~~  434 (455)
                      ..|++.+|+.+.+.+-+...    +....++|.+.+.....     .-+..++.+++.+.+.+.+...+..++
T Consensus       118 ~~Ifi~pps~e~l~~RL~~R----~~~s~e~i~~Rl~~~~~e~~~~~~~D~vI~N~dle~a~~ql~~ii~~~~  186 (186)
T PRK14737        118 VTIFIEPPSEEEWEERLIHR----GTDSEESIEKRIENGIIELDEANEFDYKIINDDLEDAIADLEAIICGKK  186 (186)
T ss_pred             EEEEEECCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHHHhhhccCCEEEECcCHHHHHHHHHHHHhcCC
Confidence            57899999977765543322    23344566666654211     011445567799999999988887653

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=97.62  E-value=0.00029  Score=66.25  Aligned_cols=113  Identities=19%  Similarity=0.241  Sum_probs=64.9

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCC
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGY  316 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~  316 (455)
                      |....--++|.|+.|+|||++++.|+...    +.-..........+.    .+...-|+.+||++.+..          
T Consensus        48 g~k~d~~lvl~G~QG~GKStf~~~L~~~~----~~d~~~~~~~kd~~~----~l~~~~iveldEl~~~~k----------  109 (198)
T PF05272_consen   48 GCKNDTVLVLVGKQGIGKSTFFRKLGPEY----FSDSINDFDDKDFLE----QLQGKWIVELDELDGLSK----------  109 (198)
T ss_pred             CCcCceeeeEecCCcccHHHHHHHHhHHh----ccCccccCCCcHHHH----HHHHhHheeHHHHhhcch----------
Confidence            55555678999999999999999997662    111112222222222    223446899999987631          


Q ss_pred             CCCcchhhHhhhhhhh-hcc-------cccCCCceEEEEEcCCCCCC-CccccCCCceeEEEEeCC
Q 047029          317 DENNSQVTLSGLLNFV-DGL-------WSSCGDERIIVFTTNYKERL-DPALLRPGRMDMHIHMSY  373 (455)
Q Consensus       317 ~~~~~~~~ls~LL~~l-dg~-------~~~~~~~~ivI~TTN~~~~L-d~allRpGR~d~~I~~~~  373 (455)
                         .....+..++..- |..       ....+...++|+|||..+-| |+.--|  || ..|+++.
T Consensus       110 ---~~~~~lK~~iT~~~~~~R~pY~~~~~~~~R~~~figTtN~~~~L~D~TGnR--Rf-~~v~v~~  169 (198)
T PF05272_consen  110 ---KDVEALKSFITRRTDTYRPPYGRDPEEFPRRAVFIGTTNDDDFLKDPTGNR--RF-WPVEVSK  169 (198)
T ss_pred             ---hhHHHHHHHhcccceeeecCCcCcceeeceeEEEEeccCCcceeeCCCCCe--EE-EEEEEcC
Confidence               1112333333221 111       11112335789999987744 556667  88 6677665

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=97.62  E-value=0.00025  Score=66.76  Aligned_cols=98  Identities=17%  Similarity=0.294  Sum_probs=57.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc-----CCcEE-----------EEecc---ccC--------ChHHHHHHHHhhC--
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL-----KFDIY-----------DMELA---SLR--------SNSDLRRLLVSTG--  291 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~-----------~l~~~---~~~--------~~~~l~~ll~~~~--  291 (455)
                      .+.++|.||+|+||||+++.++...     |.++-           ....+   ++.        ...++.+++....  
T Consensus        25 g~~~~ltGpNg~GKSTllr~i~~~~~l~~~G~~v~a~~~~~q~~~l~~~~~~~d~l~~~~s~~~~e~~~~~~iL~~~~~~  104 (199)
T cd03283          25 KNGILITGSNMSGKSTFLRTIGVNVILAQAGAPVCASSFELPPVKIFTSIRVSDDLRDGISYFYAELRRLKEIVEKAKKG  104 (199)
T ss_pred             CcEEEEECCCCCChHHHHHHHHHHHHHHHcCCEEecCccCcccceEEEeccchhccccccChHHHHHHHHHHHHHhccCC
Confidence            4679999999999999999998533     43321           00110   000        1144666777777  


Q ss_pred             CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCC
Q 047029          292 NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERL  355 (455)
Q Consensus       292 ~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~L  355 (455)
                      .|.++++||.-.-.+           ..........+++.+..      .+..+|++|++.+.+
T Consensus       105 ~p~llllDEp~~glD-----------~~~~~~l~~~ll~~l~~------~~~tiiivTH~~~~~  151 (199)
T cd03283         105 EPVLFLLDEIFKGTN-----------SRERQAASAAVLKFLKN------KNTIGIISTHDLELA  151 (199)
T ss_pred             CCeEEEEecccCCCC-----------HHHHHHHHHHHHHHHHH------CCCEEEEEcCcHHHH
Confidence            899999999864322           11111222334444321      235678888876544

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 slid

>PRK13947 shikimate kinase; Provisional

Probab=97.60  E-value=6e-05  Score=68.56  Aligned_cols=32  Identities=31%  Similarity=0.441  Sum_probs=29.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      +++|.|+||||||++++.+|+.+++++++.+.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~d~   34 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDTDK   34 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCEEECch
Confidence            58999999999999999999999999987764

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=97.60  E-value=0.00018  Score=70.63  Aligned_cols=91  Identities=23%  Similarity=0.405  Sum_probs=59.2

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC---CcEEEEecc-cc
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---FDIYDMELA-SL  277 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~---~~v~~l~~~-~~  277 (455)
                      .+.+++++...+...+.+.+.+...++.           ..++++.||+|+||||+++++..++.   ..++.++-. ++
T Consensus        99 ~~~sle~l~~~~~~~~~~~~~l~~~v~~-----------~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~  167 (270)
T PF00437_consen   99 KPFSLEDLGESGSIPEEIAEFLRSAVRG-----------RGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPEL  167 (270)
T ss_dssp             S--CHCCCCHTHHCHHHHHHHHHHCHHT-----------TEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S
T ss_pred             ccccHhhccCchhhHHHHHHHHhhcccc-----------ceEEEEECCCccccchHHHHHhhhccccccceEEeccccce
Confidence            3447888887777666666666543332           56899999999999999999999883   344444311 11


Q ss_pred             -------------CChHHHHHHHHhh--CCceEEEEecccc
Q 047029          278 -------------RSNSDLRRLLVST--GNRSILVIEDIDC  303 (455)
Q Consensus       278 -------------~~~~~l~~ll~~~--~~~~IL~iDEiD~  303 (455)
                                   .....+.+++...  .+|.+|++.||..
T Consensus       168 ~l~~~~~~~~~~~~~~~~~~~~l~~~LR~~pD~iiigEiR~  208 (270)
T PF00437_consen  168 RLPGPNQIQIQTRRDEISYEDLLKSALRQDPDVIIIGEIRD  208 (270)
T ss_dssp             --SCSSEEEEEEETTTBSHHHHHHHHTTS--SEEEESCE-S
T ss_pred             eecccceEEEEeecCcccHHHHHHHHhcCCCCcccccccCC
Confidence                         1234566666554  3689999999974

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=97.59  E-value=0.00024  Score=65.21  Aligned_cols=64  Identities=17%  Similarity=0.214  Sum_probs=46.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh-----------------------HHHHHHHHh-hCCceEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN-----------------------SDLRRLLVS-TGNRSILVI  298 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~-----------------------~~l~~ll~~-~~~~~IL~i  298 (455)
                      -+|+.||||+|||++|..++..++.+++.+........                       .++.+++.. ..++.+++|
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~~~~~~iat~~~~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~~~~~~VlI   82 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSGLQVLYIATAQPFDDEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADAAPGRCVLV   82 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcCCCcEeCcCCCCChHHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhcCCCCEEEe
Confidence            47999999999999999999999877777665443222                       134444544 345678999


Q ss_pred             ecccchhh
Q 047029          299 EDIDCSIE  306 (455)
Q Consensus       299 DEiD~l~~  306 (455)
                      |-+..+..
T Consensus        83 D~Lt~~~~   90 (170)
T PRK05800         83 DCLTTWVT   90 (170)
T ss_pred             hhHHHHHH
Confidence            99887754

>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=97.57  E-value=6.7e-05  Score=66.70  Aligned_cols=31  Identities=26%  Similarity=0.433  Sum_probs=28.4

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +++|+||||+|||++++.+|..+++++++.+
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l~~~~~~~d   31 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKALGLPFVDLD   31 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHhCCCEEEch
Confidence            4789999999999999999999999988665

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.

>PRK03839 putative kinase; Provisional

Probab=97.57  E-value=6.2e-05  Score=69.26  Aligned_cols=31  Identities=26%  Similarity=0.505  Sum_probs=28.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      -++|.|+||+||||+++.+|+.+++++++++
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d   32 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLT   32 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence            3789999999999999999999999987654

>TIGR02012 tigrfam_recA protein RecA

Probab=97.56  E-value=0.00034  Score=70.47  Aligned_cols=70  Identities=17%  Similarity=0.255  Sum_probs=45.2

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc---------------------CChHHHHHHH---Hh
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL---------------------RSNSDLRRLL---VS  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~---------------------~~~~~l~~ll---~~  289 (455)
                      |++..+-+++|||||||||+|+..++...   +..+..++....                     ....+...++   ..
T Consensus        51 Glp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~  130 (321)
T TIGR02012        51 GLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVR  130 (321)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhh
Confidence            67777789999999999999987766544   455555543221                     1111112222   22


Q ss_pred             hCCceEEEEecccchhh
Q 047029          290 TGNRSILVIEDIDCSIE  306 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~~  306 (455)
                      .....+||||-+.++.+
T Consensus       131 ~~~~~lIVIDSv~al~~  147 (321)
T TIGR02012       131 SGAVDIIVVDSVAALVP  147 (321)
T ss_pred             ccCCcEEEEcchhhhcc
Confidence            24678999999998864

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.55  E-value=0.00074  Score=64.99  Aligned_cols=37  Identities=24%  Similarity=0.230  Sum_probs=26.5

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      |++...-+++.||||||||+++..++..+   |..+..+.
T Consensus        20 gi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~   59 (230)
T PRK08533         20 GIPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS   59 (230)
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            56667789999999999999975554433   44554444

>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=97.54  E-value=0.00021  Score=65.50  Aligned_cols=23  Identities=35%  Similarity=0.739  Sum_probs=20.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .++|+|+||+||||+++.+++.+
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHHh
Confidence            47999999999999999999988

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.

>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species

Probab=97.54  E-value=0.00019  Score=72.96  Aligned_cols=115  Identities=23%  Similarity=0.265  Sum_probs=67.4

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCC
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGY  316 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~  316 (455)
                      |+|.+..++|||||+||||.++-++-+.++-.++..--+    .+  .-.|.......|-+|||+-...           
T Consensus       258 g~PKKnClvi~GPPdTGKS~F~~SLi~Fl~GkViSf~Ns----~S--hFWLqPL~d~Ki~llDDAT~~c-----------  320 (432)
T PF00519_consen  258 GIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVISFVNS----KS--HFWLQPLADAKIALLDDATYPC-----------  320 (432)
T ss_dssp             TBTTSSEEEEESSCCCSHHHHHHHHHHHHTSEEE-GGGT----TS--CGGGGGGCT-SSEEEEEE-HHH-----------
T ss_pred             CCCcccEEEEECCCCCchhHHHHHHHHHhCCEEEEecCC----CC--cccccchhcCcEEEEcCCcccH-----------
Confidence            788889999999999999999999999998887653111    11  1122334455789999986421           


Q ss_pred             CCCcchhhHhhhhhhhhcccccCC---------CceEEEEEcCCCCCCCcc---ccCCCceeEEEEeCCCC
Q 047029          317 DENNSQVTLSGLLNFVDGLWSSCG---------DERIIVFTTNYKERLDPA---LLRPGRMDMHIHMSYLT  375 (455)
Q Consensus       317 ~~~~~~~~ls~LL~~ldg~~~~~~---------~~~ivI~TTN~~~~Ld~a---llRpGR~d~~I~~~~p~  375 (455)
                          ..-.=..|-|.+||-.-+..         ...-+++|||..=.-|+.   |.+  |+ ..++|+.|=
T Consensus       321 ----W~Y~D~ylRNaLDGN~vsiD~KHkap~Qik~PPLlITsN~dv~~~~~~~YLhS--Ri-~~f~F~n~~  384 (432)
T PF00519_consen  321 ----WDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKKDDRWKYLHS--RI-TCFEFPNPF  384 (432)
T ss_dssp             ----HHHHHHHTHHHHCTSEEEEEESSSEEEEEE---EEEEESS-TTTSCCCHHHCT--TE-EEEE--S-S
T ss_pred             ----HHHHHHHHHhccCCCeeeeeccCCCceEeecCceEEecCCCCCcchhhhhhhh--eE-EEEEcCCcc
Confidence                11222345688887532210         012477899954333443   335  77 567776653

The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.

>PRK00625 shikimate kinase; Provisional

Probab=97.53  E-value=8e-05  Score=68.54  Aligned_cols=32  Identities=31%  Similarity=0.553  Sum_probs=29.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      .++|.|+||+|||++++.+|+.++++++++|.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~D~   33 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDTDD   33 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEhhH
Confidence            58999999999999999999999999988763

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=97.53  E-value=0.0008  Score=67.61  Aligned_cols=131  Identities=18%  Similarity=0.273  Sum_probs=91.3

Q ss_pred             ccccccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEE
Q 047029          195 ADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYD  271 (455)
Q Consensus       195 w~~~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~  271 (455)
                      ...+.+++...|+.+++....-+.+++....+.--           .-.+|+.|..||||-.+|+|.....   ..+|+.
T Consensus       192 ~~~~~~~~~~~F~~~v~~S~~mk~~v~qA~k~Aml-----------DAPLLI~GeTGTGKdLlAkaCH~~S~R~~~pFla  260 (511)
T COG3283         192 LQNVAAQDVSGFEQIVAVSPKMKHVVEQAQKLAML-----------DAPLLITGETGTGKDLLAKACHLASPRHSKPFLA  260 (511)
T ss_pred             HhhcccccccchHHHhhccHHHHHHHHHHHHhhcc-----------CCCeEEecCCCchHHHHHHHHhhcCcccCCCeeE
Confidence            34566777789999999888777777766544322           3368999999999999999987665   678999


Q ss_pred             EeccccCChHHHHHHH------------HhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhh-hccccc
Q 047029          272 MELASLRSNSDLRRLL------------VSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFV-DGLWSS  338 (455)
Q Consensus       272 l~~~~~~~~~~l~~ll------------~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~l-dg~~~~  338 (455)
                      ++|..+-.+..=.++|            .+..++.-+|+|||..+.+                .....||.++ ||...+
T Consensus       261 lNCA~lPe~~aEsElFG~apg~~gk~GffE~AngGTVlLDeIgEmSp----------------~lQaKLLRFL~DGtFRR  324 (511)
T COG3283         261 LNCASLPEDAAESELFGHAPGDEGKKGFFEQANGGTVLLDEIGEMSP----------------RLQAKLLRFLNDGTFRR  324 (511)
T ss_pred             eecCCCchhHhHHHHhcCCCCCCCccchhhhccCCeEEeehhhhcCH----------------HHHHHHHHHhcCCceee
Confidence            9999874332223333            3344567899999987643                3445566666 566555


Q ss_pred             CCCc------eEEEEEcCCC
Q 047029          339 CGDE------RIIVFTTNYK  352 (455)
Q Consensus       339 ~~~~------~ivI~TTN~~  352 (455)
                      -|++      +-||+||..+
T Consensus       325 VGee~Ev~vdVRVIcatq~n  344 (511)
T COG3283         325 VGEDHEVHVDVRVICATQVN  344 (511)
T ss_pred             cCCcceEEEEEEEEeccccc
Confidence            5543      5688888754

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.51  E-value=0.00038  Score=70.18  Aligned_cols=70  Identities=16%  Similarity=0.259  Sum_probs=46.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc---------------------CChHHHHHHH---Hh
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL---------------------RSNSDLRRLL---VS  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~---------------------~~~~~l~~ll---~~  289 (455)
                      |++..+-+.+|||||||||+|+..++...   +..+..++...-                     .+..++..++   ..
T Consensus        51 Glp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~  130 (325)
T cd00983          51 GYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVR  130 (325)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHh
Confidence            57777779999999999999999877544   556666654221                     1112222222   22


Q ss_pred             hCCceEEEEecccchhh
Q 047029          290 TGNRSILVIEDIDCSIE  306 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~~  306 (455)
                      .....+||||-+.++.+
T Consensus       131 s~~~~lIVIDSvaal~~  147 (325)
T cd00983         131 SGAVDLIVVDSVAALVP  147 (325)
T ss_pred             ccCCCEEEEcchHhhcc
Confidence            34678999999998864

RecA couples ATP hydrolysis to DNA strand exchange.

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

Probab=97.51  E-value=0.00042  Score=65.90  Aligned_cols=39  Identities=21%  Similarity=0.202  Sum_probs=30.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---C------CcEEEEecc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---K------FDIYDMELA  275 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~------~~v~~l~~~  275 (455)
                      |++...-+.|+||||+|||+++..+|...   +      ..++.++..
T Consensus        15 G~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e   62 (226)
T cd01393          15 GIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTE   62 (226)
T ss_pred             CCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecC
Confidence            67777789999999999999999998653   2      455666554

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.

>PRK13949 shikimate kinase; Provisional

Probab=97.51  E-value=8.8e-05  Score=67.97  Aligned_cols=33  Identities=30%  Similarity=0.464  Sum_probs=30.0

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      +.++|.||||+|||++++.+|+.+++++++++.
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~~~~id~D~   34 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELGLSFIDLDF   34 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCCeecccH
Confidence            368999999999999999999999999988763

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.51  E-value=0.00055  Score=62.75  Aligned_cols=63  Identities=19%  Similarity=0.188  Sum_probs=45.8

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC-----------------------ChHHHHHHHHhhCCceEEEEec
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR-----------------------SNSDLRRLLVSTGNRSILVIED  300 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~-----------------------~~~~l~~ll~~~~~~~IL~iDE  300 (455)
                      +|+.||||+|||++|..++...+.+++++......                       ...++.+.+...+.+.+++||-
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~at~~~~d~em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~~~~~VLIDc   81 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAELGGPVTYIATAEAFDDEMAERIARHRKRRPAHWRTIETPRDLVSALKELDPGDVVLIDC   81 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCeEEEEccCcCCHHHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcCCCCEEEEEc
Confidence            68999999999999999998887777777654321                       1234555554444567899999


Q ss_pred             ccchhh
Q 047029          301 IDCSIE  306 (455)
Q Consensus       301 iD~l~~  306 (455)
                      +.....
T Consensus        82 lt~~~~   87 (169)
T cd00544          82 LTLWVT   87 (169)
T ss_pred             HhHHHH
Confidence            887654

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>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=97.51  E-value=5.4e-05  Score=66.46  Aligned_cols=27  Identities=41%  Similarity=0.685  Sum_probs=23.8

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      +++.||||+||||+|+.+++.++..++
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~~~~i   28 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLGAVVI   28 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHSTEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCCEEE
Confidence            689999999999999999999994443

...

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.50  E-value=0.00056  Score=67.88  Aligned_cols=61  Identities=21%  Similarity=0.372  Sum_probs=41.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc----C-CcEEEEecccc----------------------CChHHHHHHHHhhCCc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL----K-FDIYDMELASL----------------------RSNSDLRRLLVSTGNR  293 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l----~-~~v~~l~~~~~----------------------~~~~~l~~ll~~~~~~  293 (455)
                      ++.++|.||+|+||||++..+|..+    + ..+..+++...                      .....+.+.+......
T Consensus       194 ~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~~~~~  273 (282)
T TIGR03499       194 GGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRLRDK  273 (282)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHHccCC
Confidence            4468999999999999999999876    3 56655555432                      1233455555555556


Q ss_pred             eEEEEecc
Q 047029          294 SILVIEDI  301 (455)
Q Consensus       294 ~IL~iDEi  301 (455)
                      .+|+||..
T Consensus       274 d~vliDt~  281 (282)
T TIGR03499       274 DLILIDTA  281 (282)
T ss_pred             CEEEEeCC
Confidence            67777753

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=97.49  E-value=0.00021  Score=78.32  Aligned_cols=51  Identities=27%  Similarity=0.368  Sum_probs=42.1

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      +|..|+.++|+++.++.|...+..               ++.++|+||||||||++++++|+.+..
T Consensus        26 ~~~~~~~vigq~~a~~~L~~~~~~---------------~~~~l~~G~~G~GKttla~~l~~~l~~   76 (637)
T PRK13765         26 PERLIDQVIGQEHAVEVIKKAAKQ---------------RRHVMMIGSPGTGKSMLAKAMAELLPK   76 (637)
T ss_pred             CcccHHHcCChHHHHHHHHHHHHh---------------CCeEEEECCCCCcHHHHHHHHHHHcCh
Confidence            367899999998888877654431               358999999999999999999998853

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.48  E-value=0.0011  Score=68.26  Aligned_cols=23  Identities=35%  Similarity=0.626  Sum_probs=21.2

Q ss_pred             eEEECCCCCChHHHHHHHHHHcC
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .+++||||+|||+|++.+++...
T Consensus       172 ~lIvgppGvGKTTLaK~Ian~I~  194 (416)
T PRK09376        172 GLIVAPPKAGKTVLLQNIANSIT  194 (416)
T ss_pred             EEEeCCCCCChhHHHHHHHHHHH
Confidence            78899999999999999999774

>PRK04040 adenylate kinase; Provisional

Probab=97.47  E-value=0.00043  Score=64.60  Aligned_cols=30  Identities=23%  Similarity=0.492  Sum_probs=25.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc--CCcEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL--KFDIY  270 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l--~~~v~  270 (455)
                      ++-++++|+|||||||+++.+++.+  ++.++
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l~~~~~~~   33 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKLKEDYKIV   33 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHhccCCeEE
Confidence            4568999999999999999999999  55554

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.46  E-value=0.00066  Score=64.98  Aligned_cols=40  Identities=18%  Similarity=0.179  Sum_probs=30.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---------CCcEEEEeccc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---------KFDIYDMELAS  276 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---------~~~v~~l~~~~  276 (455)
                      |++...-+.|+||||||||+++..+|...         +..++.++...
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~   63 (235)
T cd01123          15 GIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG   63 (235)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence            67777779999999999999999998543         24666666543

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 .

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=97.45  E-value=0.00026  Score=71.17  Aligned_cols=58  Identities=24%  Similarity=0.304  Sum_probs=43.5

Q ss_pred             cCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          211 MDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       211 g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      ..++.++.+.+.++..+....     -.+++..+.|.|+||||||++++.+|..+|+++++++
T Consensus       108 l~~~~~~~~~~~l~~~~~~~~-----~~~~~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D  165 (309)
T PRK08154        108 ASPAQLARVRDALSGMLGAGR-----RAARRRRIALIGLRGAGKSTLGRMLAARLGVPFVELN  165 (309)
T ss_pred             CCHHHHHHHHHHHHHHHhhhh-----hccCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEeHH
Confidence            345556666666665443322     2455678999999999999999999999999999655

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

Probab=97.45  E-value=0.0001  Score=67.34  Aligned_cols=34  Identities=29%  Similarity=0.398  Sum_probs=31.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      .+.+.|.|++|+||||+-+++|+.|+++|++.|-
T Consensus         2 ~~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D~   35 (172)
T COG0703           2 NMNIVLIGFMGAGKSTIGRALAKALNLPFIDTDQ   35 (172)
T ss_pred             CccEEEEcCCCCCHhHHHHHHHHHcCCCcccchH
Confidence            3579999999999999999999999999998874

>PRK13948 shikimate kinase; Provisional

Probab=97.44  E-value=0.00015  Score=67.34  Aligned_cols=34  Identities=26%  Similarity=0.185  Sum_probs=31.8

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +++.++|.|++|+||||+++.+|+.++.++++.|
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D   42 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALMLHFIDTD   42 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcCCCEEECC
Confidence            4688999999999999999999999999999877

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

Probab=97.42  E-value=7.6e-05  Score=68.17  Aligned_cols=37  Identities=30%  Similarity=0.466  Sum_probs=26.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCc---EEEEecccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFD---IYDMELASL  277 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~---v~~l~~~~~  277 (455)
                      ++.++|+||+|+|||++++++...+..+   ++.+++...
T Consensus        24 ~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~~~~   63 (185)
T PF13191_consen   24 PRNLLLTGESGSGKTSLLRALLDRLAERGGYVISINCDDS   63 (185)
T ss_dssp             ---EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEEETT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEEecc
Confidence            5789999999999999999998887433   666766654

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.42  E-value=0.0021  Score=67.50  Aligned_cols=63  Identities=21%  Similarity=0.308  Sum_probs=43.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEecccc----------------------CChHHHHHHHHhhCCc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELASL----------------------RSNSDLRRLLVSTGNR  293 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~~~----------------------~~~~~l~~ll~~~~~~  293 (455)
                      ++.++|.||+|+||||++..+|..+     +..+..+++...                      .+..++...+......
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~~~  300 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLRDC  300 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhCCC
Confidence            4568999999999999999998765     345555554432                      1223455555555567


Q ss_pred             eEEEEecccc
Q 047029          294 SILVIEDIDC  303 (455)
Q Consensus       294 ~IL~iDEiD~  303 (455)
                      .+|+||....
T Consensus       301 DlVlIDt~G~  310 (424)
T PRK05703        301 DVILIDTAGR  310 (424)
T ss_pred             CEEEEeCCCC
Confidence            8899998764

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.40  E-value=0.0005  Score=72.63  Aligned_cols=70  Identities=23%  Similarity=0.311  Sum_probs=48.3

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC--------------------ChHHHHHHHHhh--C
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR--------------------SNSDLRRLLVST--G  291 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~--------------------~~~~l~~ll~~~--~  291 (455)
                      |++...-+||+||||+|||+|+..+|...   +..+++++..+-.                    ....+..++...  .
T Consensus        76 Gi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~  155 (446)
T PRK11823         76 GLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESASQIKLRAERLGLPSDNLYLLAETNLEAILATIEEE  155 (446)
T ss_pred             CccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccHHHHHHHHHHcCCChhcEEEeCCCCHHHHHHHHHhh
Confidence            67777789999999999999999998866   5677766643210                    011222333222  3


Q ss_pred             CceEEEEecccchhh
Q 047029          292 NRSILVIEDIDCSIE  306 (455)
Q Consensus       292 ~~~IL~iDEiD~l~~  306 (455)
                      ++.+|+||.|..+..
T Consensus       156 ~~~lVVIDSIq~l~~  170 (446)
T PRK11823        156 KPDLVVIDSIQTMYS  170 (446)
T ss_pred             CCCEEEEechhhhcc
Confidence            678999999998753

>PRK05973 replicative DNA helicase; Provisional

Probab=97.40  E-value=0.0013  Score=63.64  Aligned_cols=38  Identities=24%  Similarity=0.001  Sum_probs=29.4

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      |+++..-+++.|+||+|||+++..+|...   |.+++.+.+
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSl  100 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTL  100 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEE
Confidence            66667779999999999999998887654   666555443

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.40  E-value=0.00043  Score=62.84  Aligned_cols=23  Identities=35%  Similarity=0.599  Sum_probs=21.4

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -+++.||+|||||+|.+++|...
T Consensus        31 ~iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          31 FIAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             eEEEeCCCCccHHHHHHHHHhcc
Confidence            48999999999999999999876

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.39  E-value=0.00015  Score=66.76  Aligned_cols=29  Identities=24%  Similarity=0.484  Sum_probs=25.5

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +++.||||+||||+++.+|..+++..+.+
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~~~is~   30 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGFTHLSA   30 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence            68999999999999999999998765543

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.

>PRK14532 adenylate kinase; Provisional

Probab=97.39  E-value=0.00015  Score=67.09  Aligned_cols=30  Identities=20%  Similarity=0.423  Sum_probs=26.9

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .++|.||||+||||+++.+|+.+|+..++.
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g~~~is~   31 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERGMVQLST   31 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCeEEeC
Confidence            489999999999999999999999877654

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=97.38  E-value=0.00016  Score=68.18  Aligned_cols=25  Identities=44%  Similarity=0.834  Sum_probs=19.3

Q ss_pred             Cce-eEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRG-YLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg-~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..+ .++.||||||||+++.+++..+
T Consensus        16 ~~~~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen   16 SNGITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             SSE-EEEE-STTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEECCCCCChHHHHHHHHHHh
Confidence            345 8999999999998777777666

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.38  E-value=0.0015  Score=68.53  Aligned_cols=61  Identities=15%  Similarity=0.210  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          214 VLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       214 ~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      .+.+.+.+.+...+.......... ..|..++++||+|+||||++..+|..+   |..+..+++.
T Consensus        69 ~~~~~v~~~L~~~l~~~~~~~~~~-~~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D  132 (437)
T PRK00771         69 HVIKIVYEELVKLLGEETEPLVLP-LKPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAAD  132 (437)
T ss_pred             HHHHHHHHHHHHHhCCCccccccC-CCCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCC
Confidence            345555555554443221111111 346789999999999999999999888   4555555543

>PRK06217 hypothetical protein; Validated

Probab=97.38  E-value=0.00016  Score=66.81  Aligned_cols=31  Identities=29%  Similarity=0.435  Sum_probs=28.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      .++|.|+||+||||+++++|+.++++++++|
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~D   33 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIPHLDTD   33 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEcC
Confidence            4899999999999999999999999887665

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.38  E-value=0.001  Score=66.44  Aligned_cols=156  Identities=21%  Similarity=0.228  Sum_probs=96.6

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHH---HHHcCCcEEEEecccc-CC----
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAM---ANYLKFDIYDMELASL-RS----  279 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~al---A~~l~~~v~~l~~~~~-~~----  279 (455)
                      .+.|..+..+.+.+.++.-+-..+         ...+++.||.|+|||.++...   +++.|-+++.+.+... ..    
T Consensus        25 ~l~g~~~~~~~l~~~lkqt~~~gE---------snsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~a   95 (408)
T KOG2228|consen   25 NLFGVQDEQKHLSELLKQTILHGE---------SNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIA   95 (408)
T ss_pred             ceeehHHHHHHHHHHHHHHHHhcC---------CCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHH
Confidence            456667777777777765554433         568999999999999877544   3367778777665432 11    


Q ss_pred             ----------------------hHHHHHHHHhh------C-CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          280 ----------------------NSDLRRLLVST------G-NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       280 ----------------------~~~l~~ll~~~------~-~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                            ...+.+++...      + .+.|.++||+|-..+             ..+++  -|-|
T Consensus        96 l~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~-------------h~rQt--llYn  160 (408)
T KOG2228|consen   96 LKGITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAP-------------HSRQT--LLYN  160 (408)
T ss_pred             HHHHHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhcccc-------------chhhH--HHHH
Confidence                                  12233333221      1 235677789997643             22233  2567


Q ss_pred             hhhcccccCCCceEEEEEcCCCC---CCCccccCCCceeEE-EEeC-CCCHHHHHHHHHHhhccc
Q 047029          331 FVDGLWSSCGDERIIVFTTNYKE---RLDPALLRPGRMDMH-IHMS-YLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       331 ~ldg~~~~~~~~~ivI~TTN~~~---~Ld~allRpGR~d~~-I~~~-~p~~~~~~~L~~~~l~~~  390 (455)
                      .+|-..++. .++.||+-|.+-+   .|......  ||... |+|. ....++...+.++.+...
T Consensus       161 lfDisqs~r-~Piciig~Ttrld~lE~LEKRVKS--RFshr~I~m~~~~~l~~yv~l~r~ll~v~  222 (408)
T KOG2228|consen  161 LFDISQSAR-APICIIGVTTRLDILELLEKRVKS--RFSHRVIFMLPSLPLGDYVDLYRKLLSVP  222 (408)
T ss_pred             HHHHHhhcC-CCeEEEEeeccccHHHHHHHHHHh--hcccceeeccCCCChHHHHHHHHHHhcCC
Confidence            777655442 4566776555544   44556666  88765 6664 456788999999988543

>PRK14531 adenylate kinase; Provisional

Probab=97.37  E-value=0.00019  Score=66.43  Aligned_cols=32  Identities=28%  Similarity=0.490  Sum_probs=28.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      ++-+++.||||+||||+++.+|..+|+..+..
T Consensus         2 ~~~i~i~G~pGsGKsT~~~~la~~~g~~~is~   33 (183)
T PRK14531          2 KQRLLFLGPPGAGKGTQAARLCAAHGLRHLST   33 (183)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCCeEec
Confidence            44699999999999999999999999887654

>smart00072 GuKc Guanylate kinase homologues

Probab=97.37  E-value=0.00081  Score=62.26  Aligned_cols=62  Identities=10%  Similarity=0.074  Sum_probs=38.4

Q ss_pred             EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhccccCch-----hHHHhccCCHHHHHHHHHHHHHH
Q 047029          367 MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTP-----AEEFMKSEDADVALNGLVDFLLR  432 (455)
Q Consensus       367 ~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~~~~tp-----a~~l~~~~~~~~al~~l~~~l~~  432 (455)
                      ..|++.+|+.+..++.+....    ....+++.+.+..+....     ....+-+++.+.+.+.|.+.+..
T Consensus       116 ~vIfi~~~s~~~l~~rl~~R~----~~~~~~i~~rl~~a~~~~~~~~~fd~~I~n~~l~~~~~~l~~~i~~  182 (184)
T smart00072      116 IVIFIAPPSSEELERRLRGRG----TETAERIQKRLAAAQKEAQEYHLFDYVIVNDDLEDAYEELKEILEA  182 (184)
T ss_pred             EEEEEeCcCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHHHhhhccCCEEEECcCHHHHHHHHHHHHHh
Confidence            688999999887666665432    223344555444321111     13445678999999999888864

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.

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=97.37  E-value=0.0006  Score=61.25  Aligned_cols=99  Identities=22%  Similarity=0.292  Sum_probs=56.5

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCCc--EEEEecccc-----------------CChHHHHHHH---HhhCCceEEE
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKFD--IYDMELASL-----------------RSNSDLRRLL---VSTGNRSILV  297 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~~--v~~l~~~~~-----------------~~~~~l~~ll---~~~~~~~IL~  297 (455)
                      +..-+.|.||+|+|||+|++++++.+...  -+.++...+                 .+..+.+++.   .-+..|.+++
T Consensus        24 ~g~~~~i~G~nGsGKStll~~l~g~~~~~~G~i~~~~~~~~~~~~~~~~~~i~~~~qlS~G~~~r~~l~~~l~~~~~i~i  103 (157)
T cd00267          24 AGEIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEELRRRIGYVPQLSGGQRQRVALARALLLNPDLLL  103 (157)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCccEEEECCEEcccCCHHHHHhceEEEeeCCHHHHHHHHHHHHHhcCCCEEE
Confidence            34578999999999999999999987422  111211110                 1223333332   2234789999


Q ss_pred             EecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCC
Q 047029          298 IEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLD  356 (455)
Q Consensus       298 iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld  356 (455)
                      +||...-++            .   .+...+.+.+......   +..+|++|++.+.+.
T Consensus       104 lDEp~~~lD------------~---~~~~~l~~~l~~~~~~---~~tii~~sh~~~~~~  144 (157)
T cd00267         104 LDEPTSGLD------------P---ASRERLLELLRELAEE---GRTVIIVTHDPELAE  144 (157)
T ss_pred             EeCCCcCCC------------H---HHHHHHHHHHHHHHHC---CCEEEEEeCCHHHHH
Confidence            999986543            1   2223344444333221   356778887765443

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.36  E-value=0.0024  Score=65.90  Aligned_cols=58  Identities=19%  Similarity=0.300  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          213 PVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       213 ~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      ..+++.+.+.+...+..+..+    ...++-++|.||+|+||||++..||..+   +..+..+++
T Consensus       217 ~~~~~~l~~~l~~~l~~~~~~----~~~~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~a  277 (436)
T PRK11889        217 EEVIEYILEDMRSHFNTENVF----EKEVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITT  277 (436)
T ss_pred             HHHHHHHHHHHHHHhcccccc----ccCCcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEec
Confidence            345666666665555433211    1224679999999999999999999877   344444443

>PF13479 AAA_24: AAA domain

Probab=97.35  E-value=0.00029  Score=66.90  Aligned_cols=60  Identities=32%  Similarity=0.507  Sum_probs=38.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEecc-------------ccCChHHHHHHHHhh----CCceEEEEecccch
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELA-------------SLRSNSDLRRLLVST----GNRSILVIEDIDCS  304 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~-------------~~~~~~~l~~ll~~~----~~~~IL~iDEiD~l  304 (455)
                      -.++||||||+|||+++..+-+-+   +++++.+             .+.+-.++.+.+...    ..-..||||-++.+
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~~k~l---~id~E~g~~~~~~~~~~~~i~i~s~~~~~~~~~~l~~~~~~y~tiVIDsis~~   80 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASLPKPL---FIDTENGSDSLKFLDDGDVIPITSWEDFLEALDELEEDEADYDTIVIDSISWL   80 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhCCCeE---EEEeCCCccchhhhcCCCeeCcCCHHHHHHHHHHHHhccCCCCEEEEECHHHH
Confidence            468999999999999999882222   2223222             112345566655332    34579999999865

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

Probab=97.34  E-value=0.00018  Score=63.94  Aligned_cols=28  Identities=32%  Similarity=0.453  Sum_probs=24.8

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      ++|.||||+||||+++.+++.++..+++
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~i~   29 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPFID   29 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEEEe
Confidence            6899999999999999999998876654

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

>PRK13946 shikimate kinase; Provisional

Probab=97.34  E-value=0.00018  Score=66.71  Aligned_cols=34  Identities=32%  Similarity=0.444  Sum_probs=31.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      ++.++|.|+||||||++++.+|+.+|+++++.|.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D~   43 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLGLPFLDADT   43 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCCCeECcCH
Confidence            5689999999999999999999999999998774

>KOG2383 consensus Predicted ATPase [General function prediction only]

Probab=97.32  E-value=0.00046  Score=70.21  Aligned_cols=26  Identities=35%  Similarity=0.579  Sum_probs=22.1

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +|+|++|||.-|||||+|.-..-..+
T Consensus       113 ~PkGlYlYG~VGcGKTmLMDlFy~~~  138 (467)
T KOG2383|consen  113 PPKGLYLYGSVGCGKTMLMDLFYDAL  138 (467)
T ss_pred             CCceEEEecccCcchhHHHHHHhhcC
Confidence            48999999999999999998766443

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.32  E-value=0.00018  Score=64.94  Aligned_cols=28  Identities=32%  Similarity=0.615  Sum_probs=24.4

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      ++|.||||+||||+++.+++.++..+++
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~v~   28 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKFIE   28 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeEEe
Confidence            5789999999999999999999866543

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.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=97.32  E-value=0.00023  Score=65.32  Aligned_cols=34  Identities=38%  Similarity=0.677  Sum_probs=30.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      ++.++|.||+|+|||++++.+|+.+++++++.+.
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D~   37 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQ   37 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcCCcEEECCc
Confidence            4579999999999999999999999999887764

>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=97.31  E-value=0.00021  Score=62.78  Aligned_cols=30  Identities=30%  Similarity=0.493  Sum_probs=28.0

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +.+.|+||||||++++.+|..++++++..+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence            578999999999999999999999998776

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.30  E-value=0.0025  Score=65.74  Aligned_cols=69  Identities=23%  Similarity=0.299  Sum_probs=46.7

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc--------------------CChHHHHHHHHh--hC
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL--------------------RSNSDLRRLLVS--TG  291 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~--------------------~~~~~l~~ll~~--~~  291 (455)
                      |+.+..-++|+||||+|||+++..+|..+   +..+++++..+-                    .....+..++..  ..
T Consensus        78 Gi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~~  157 (372)
T cd01121          78 GLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAETNLEDILASIEEL  157 (372)
T ss_pred             CccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcCHHHHHHHHHHcCCCcccEEEEccCcHHHHHHHHHhc
Confidence            57777789999999999999999998766   346666654321                    011122223222  23


Q ss_pred             CceEEEEecccchh
Q 047029          292 NRSILVIEDIDCSI  305 (455)
Q Consensus       292 ~~~IL~iDEiD~l~  305 (455)
                      ++.+|+||+|..+.
T Consensus       158 ~~~lVVIDSIq~l~  171 (372)
T cd01121         158 KPDLVIIDSIQTVY  171 (372)
T ss_pred             CCcEEEEcchHHhh
Confidence            68899999998875

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.

>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=97.29  E-value=0.00022  Score=65.98  Aligned_cols=29  Identities=31%  Similarity=0.541  Sum_probs=26.2

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +++.||||+|||++++.||..+|+..+.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~~~~i~~   30 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYGLPHIST   30 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence            78999999999999999999998777654

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.28  E-value=0.00089  Score=65.82  Aligned_cols=86  Identities=19%  Similarity=0.284  Sum_probs=53.5

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC---CcEEEEec------
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---FDIYDMEL------  274 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~---~~v~~l~~------  274 (455)
                      .+++++.+.++..+.+.+.+.    .          ....+++.||+|+||||+++++..++.   ..++.++-      
T Consensus        57 ~~l~~lg~~~~~~~~l~~~~~----~----------~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~  122 (264)
T cd01129          57 LDLEKLGLKPENLEIFRKLLE----K----------PHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQI  122 (264)
T ss_pred             CCHHHcCCCHHHHHHHHHHHh----c----------CCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecC
Confidence            467788877776666544332    1          123489999999999999999988773   33444421      


Q ss_pred             ccc-----C--ChHHHHHHHHhh--CCceEEEEecccc
Q 047029          275 ASL-----R--SNSDLRRLLVST--GNRSILVIEDIDC  303 (455)
Q Consensus       275 ~~~-----~--~~~~l~~ll~~~--~~~~IL~iDEiD~  303 (455)
                      ..+     .  ....+...+...  ..|.+|+++||..
T Consensus       123 ~~~~q~~v~~~~~~~~~~~l~~~lR~~PD~i~vgEiR~  160 (264)
T cd01129         123 PGINQVQVNEKAGLTFARGLRAILRQDPDIIMVGEIRD  160 (264)
T ss_pred             CCceEEEeCCcCCcCHHHHHHHHhccCCCEEEeccCCC
Confidence            111     1  112233444333  3699999999963

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.

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.28  E-value=0.0026  Score=65.14  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=21.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      -.++.||||||||++++.+|+.+.
T Consensus       135 R~LIvG~pGtGKTTLl~~la~~i~  158 (380)
T PRK12608        135 RGLIVAPPRAGKTVLLQQIAAAVA  158 (380)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH
Confidence            369999999999999999999873

>PRK08233 hypothetical protein; Provisional

Probab=97.27  E-value=0.001  Score=60.70  Aligned_cols=33  Identities=18%  Similarity=0.233  Sum_probs=25.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC-CcEEEEec
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK-FDIYDMEL  274 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~-~~v~~l~~  274 (455)
                      .-+.+.|+||+||||+++.++..++ ..++..+.
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~l~~~~~~~~d~   37 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHKLKNSKALYFDR   37 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCCCCceEEECC
Confidence            3467789999999999999999985 44444443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.27  E-value=0.0046  Score=70.67  Aligned_cols=145  Identities=17%  Similarity=0.111  Sum_probs=77.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh------------------------------------HHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN------------------------------------SDLR  284 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~------------------------------------~~l~  284 (455)
                      .+-+++.||+|.|||+++...+...+ ++.-+.+..-.++                                    ..+.
T Consensus        32 ~~~~~v~apaG~GKTtl~~~~~~~~~-~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (903)
T PRK04841         32 YRLVLVTSPAGYGKTTLISQWAAGKN-NLGWYSLDESDNQPERFASYLIAALQQATNGHCSKSEALAQKRQYASLSSLFA  110 (903)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhCC-CeEEEecCcccCCHHHHHHHHHHHHHHhcCcccchhhhhhccCCcCCHHHHHH
Confidence            45799999999999999999988776 5544444211000                                    0011


Q ss_pred             HHHHh---hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCc-ccc
Q 047029          285 RLLVS---TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDP-ALL  360 (455)
Q Consensus       285 ~ll~~---~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~-all  360 (455)
                      .++..   ...|.+|||||++.+-+            ......+..|+.   ..    +.+..+|+|+.....+.- .+.
T Consensus       111 ~~~~~l~~~~~~~~lvlDD~h~~~~------------~~~~~~l~~l~~---~~----~~~~~lv~~sR~~~~~~~~~l~  171 (903)
T PRK04841        111 QLFIELADWHQPLYLVIDDYHLITN------------PEIHEAMRFFLR---HQ----PENLTLVVLSRNLPPLGIANLR  171 (903)
T ss_pred             HHHHHHhcCCCCEEEEEeCcCcCCC------------hHHHHHHHHHHH---hC----CCCeEEEEEeCCCCCCchHhHH
Confidence            22222   24688999999997621            111122223332   22    344555556654222221 111


Q ss_pred             CCCceeEEEEeC----CCCHHHHHHHHHHhhcccCCCchHHHHHhhccccCchh
Q 047029          361 RPGRMDMHIHMS----YLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPA  410 (455)
Q Consensus       361 RpGR~d~~I~~~----~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~~~~tpa  410 (455)
                      ..|.   .+++.    ..+.++-..++...++..  ...+++.++.+...--|+
T Consensus       172 ~~~~---~~~l~~~~l~f~~~e~~~ll~~~~~~~--~~~~~~~~l~~~t~Gwp~  220 (903)
T PRK04841        172 VRDQ---LLEIGSQQLAFDHQEAQQFFDQRLSSP--IEAAESSRLCDDVEGWAT  220 (903)
T ss_pred             hcCc---ceecCHHhCCCCHHHHHHHHHhccCCC--CCHHHHHHHHHHhCChHH
Confidence            1122   33444    668888888888766542  223455555554444444

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.27  E-value=0.00025  Score=62.97  Aligned_cols=41  Identities=29%  Similarity=0.543  Sum_probs=32.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDL  283 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l  283 (455)
                      ..++|+.|-||||||+++.++|..+++..+.+  +.+..+.++
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~~~~~i~i--sd~vkEn~l   47 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKTGLEYIEI--SDLVKENNL   47 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHhCCceEeh--hhHHhhhcc
Confidence            45899999999999999999999999887644  444333333

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.26  E-value=0.00091  Score=65.53  Aligned_cols=39  Identities=18%  Similarity=0.101  Sum_probs=31.5

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      |++...-++++||||||||+++..+|...   |.++..++..
T Consensus        32 Gip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~E   73 (259)
T TIGR03878        32 GIPAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVE   73 (259)
T ss_pred             CeECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEec
Confidence            67777789999999999999999886643   6677777665

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.26  E-value=0.0015  Score=62.09  Aligned_cols=26  Identities=35%  Similarity=0.612  Sum_probs=22.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .-+.|+.|||||||||+.+-+|+.+.
T Consensus       137 ~lntLiigpP~~GKTTlLRdiaR~~s  162 (308)
T COG3854         137 WLNTLIIGPPQVGKTTLLRDIARLLS  162 (308)
T ss_pred             ceeeEEecCCCCChHHHHHHHHHHhh
Confidence            34689999999999999999999873

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.25  E-value=0.00092  Score=61.76  Aligned_cols=65  Identities=18%  Similarity=0.274  Sum_probs=40.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCc--EEEEe---c----ccc-CChHHHHHHH---HhhCCceEEEEecccchh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFD--IYDME---L----ASL-RSNSDLRRLL---VSTGNRSILVIEDIDCSI  305 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~--v~~l~---~----~~~-~~~~~l~~ll---~~~~~~~IL~iDEiD~l~  305 (455)
                      ..-+.|.||.|+|||||++.+++.+..+  -+.++   .    ... .+..+-+++-   .-..+|.++++||-..-+
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq~qrv~laral~~~p~lllLDEPts~L  102 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGELQRVAIAAALLRNATFYLFDEPSAYL  102 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHHHHHHHHHHHHhcCCCEEEEECCcccC
Confidence            4568899999999999999999976311  11111   0    110 2223333322   223579999999987544

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=97.24  E-value=0.00032  Score=63.85  Aligned_cols=33  Identities=27%  Similarity=0.458  Sum_probs=29.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      ..++|.|+||||||++++.+|+.+|+++++.+.
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~lg~~~~d~D~   35 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQALGYRFVDTDQ   35 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEEccH
Confidence            358899999999999999999999999987763

>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=97.24  E-value=0.00091  Score=59.47  Aligned_cols=66  Identities=23%  Similarity=0.298  Sum_probs=41.9

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcCCc---EE-----EEe-ccccCChHHHHHHH---HhhCCceEEEEecccchh
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFD---IY-----DME-LASLRSNSDLRRLL---VSTGNRSILVIEDIDCSI  305 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~~~---v~-----~l~-~~~~~~~~~l~~ll---~~~~~~~IL~iDEiD~l~  305 (455)
                      .....+.|.||+|+|||||++++++.+...   ++     .+. ..+ .+..+.+++.   .-..+|.++++||-..-+
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~~~~~i~~~~~-lS~G~~~rv~laral~~~p~illlDEP~~~L  101 (144)
T cd03221          24 NPGDRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGSTVKIGYFEQ-LSGGEKMRLALAKLLLENPNLLLLDEPTNHL  101 (144)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHcCCCCCCceEEEECCeEEEEEEcc-CCHHHHHHHHHHHHHhcCCCEEEEeCCccCC
Confidence            334568999999999999999999987321   11     000 011 2333444432   223579999999987644

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.

>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=97.23  E-value=0.0013  Score=61.68  Aligned_cols=64  Identities=20%  Similarity=0.314  Sum_probs=40.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH-c----CCcE--------------EEEeccc-c--------CChHHHHHHHHhhCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY-L----KFDI--------------YDMELAS-L--------RSNSDLRRLLVSTGN  292 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~-l----~~~v--------------~~l~~~~-~--------~~~~~l~~ll~~~~~  292 (455)
                      ++-++|.||.|+|||++.++++.- +    |..+              ..+...+ +        .....+..++.....
T Consensus        29 ~~~~~l~G~Ng~GKStll~~i~~~~~~~~~g~~~~~~~~~i~~~dqi~~~~~~~d~i~~~~s~~~~e~~~l~~i~~~~~~  108 (202)
T cd03243          29 GRLLLITGPNMGGKSTYLRSIGLAVLLAQIGCFVPAESASIPLVDRIFTRIGAEDSISDGRSTFMAELLELKEILSLATP  108 (202)
T ss_pred             CeEEEEECCCCCccHHHHHHHHHHHHHHHcCCCccccccccCCcCEEEEEecCcccccCCceeHHHHHHHHHHHHHhccC
Confidence            356999999999999999999932 2    2211              1111110 0        011334445555578


Q ss_pred             ceEEEEecccch
Q 047029          293 RSILVIEDIDCS  304 (455)
Q Consensus       293 ~~IL~iDEiD~l  304 (455)
                      +.++++||...-
T Consensus       109 ~~llllDEp~~g  120 (202)
T cd03243         109 RSLVLIDELGRG  120 (202)
T ss_pred             CeEEEEecCCCC
Confidence            999999999754

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

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=97.23  E-value=0.001  Score=66.54  Aligned_cols=62  Identities=21%  Similarity=0.351  Sum_probs=41.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC-----CcEEEEecc-c----------c---CChHHHHHHHHhh--CCceEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK-----FDIYDMELA-S----------L---RSNSDLRRLLVST--GNRSILVIE  299 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~-----~~v~~l~~~-~----------~---~~~~~l~~ll~~~--~~~~IL~iD  299 (455)
                      ++++++.||+|+||||+++++++++.     ..++.++-. +          +   .....+.+++...  .+|..|++.
T Consensus       132 ~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~v~~~~~~~~~~~~~~l~~aLR~~pD~iivG  211 (299)
T TIGR02782       132 RKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNVVQLRTSDDAISMTRLLKATLRLRPDRIIVG  211 (299)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCEEEEEecCCCCCHHHHHHHHhcCCCCEEEEe
Confidence            56899999999999999999999872     333333211 0          0   0111455555443  368999999


Q ss_pred             ccc
Q 047029          300 DID  302 (455)
Q Consensus       300 EiD  302 (455)
                      |+-
T Consensus       212 EiR  214 (299)
T TIGR02782       212 EVR  214 (299)
T ss_pred             ccC
Confidence            986

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=97.22  E-value=0.0078  Score=58.00  Aligned_cols=125  Identities=11%  Similarity=0.059  Sum_probs=91.8

Q ss_pred             CceeEEECCCC-CChHHHHHHHHHHcC---------CcEEEEeccc-------cCChHHHHHHHHhh------CCceEEE
Q 047029          241 KRGYLLYGPPG-TGKSSLIAAMANYLK---------FDIYDMELAS-------LRSNSDLRRLLVST------GNRSILV  297 (455)
Q Consensus       241 ~rg~LL~GPpG-TGKTsla~alA~~l~---------~~v~~l~~~~-------~~~~~~l~~ll~~~------~~~~IL~  297 (455)
                      ...||+.|..+ +||..++.-++..+.         -+++.+....       .-+-.++|++....      +...|++
T Consensus        15 shAYLfeG~n~~~~~~~~~~f~~~~l~~~~i~~~~HPD~~~I~pe~~~~~~~~~I~IdqIReL~~~l~~~p~~g~~KViI   94 (263)
T PRK06581         15 YNSWLIEAENIEQALKDLEKFIYIKLFKNSIPLENNPDYHFIARETSATSNAKNISIEQIRKLQDFLSKTSAISGYKVAI   94 (263)
T ss_pred             hheeeEeCCChhhHHHHHHHHHHHHHhccCcccCCCCCEEEEeccccccccCCcccHHHHHHHHHHHhhCcccCCcEEEE
Confidence            35799999998 999999988888762         3455554321       12345666655433      2457999


Q ss_pred             EecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHH
Q 047029          298 IEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPG  377 (455)
Q Consensus       298 iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~  377 (455)
                      |+++|.+-.                ...+.||..++.    .+.+.++|++|..++.|.|.+++  |+ .++.+..|...
T Consensus        95 I~~ae~mt~----------------~AANALLKtLEE----PP~~t~fILit~~~~~LLpTIrS--RC-q~i~~~~p~~~  151 (263)
T PRK06581         95 IYSAELMNL----------------NAANSCLKILED----APKNSYIFLITSRAASIISTIRS--RC-FKINVRSSILH  151 (263)
T ss_pred             EechHHhCH----------------HHHHHHHHhhcC----CCCCeEEEEEeCChhhCchhHhh--ce-EEEeCCCCCHH
Confidence            999998742                456778887765    34678888999999999999999  88 68999999998


Q ss_pred             HHHHHHHHhhc
Q 047029          378 GFKILAFNYLK  388 (455)
Q Consensus       378 ~~~~L~~~~l~  388 (455)
                      .-.++...++.
T Consensus       152 ~~~e~~~~~~~  162 (263)
T PRK06581        152 AYNELYSQFIQ  162 (263)
T ss_pred             HHHHHHHHhcc
Confidence            87777766654

>PRK04296 thymidine kinase; Provisional

Probab=97.22  E-value=0.0021  Score=59.97  Aligned_cols=30  Identities=20%  Similarity=0.276  Sum_probs=24.2

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc---CCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL---KFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l---~~~v~~l  272 (455)
                      -.+++||||+|||+++..++..+   +..++.+
T Consensus         4 i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~   36 (190)
T PRK04296          4 LEFIYGAMNSGKSTELLQRAYNYEERGMKVLVF   36 (190)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEE
Confidence            47899999999999998888876   5555544

>PRK14530 adenylate kinase; Provisional

Probab=97.22  E-value=0.00034  Score=66.46  Aligned_cols=31  Identities=26%  Similarity=0.425  Sum_probs=27.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +.++|.||||+||||+++.||+.++++.+..
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~~~~~i~~   34 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEFGVEHVTT   34 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            3689999999999999999999999877644

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=97.22  E-value=0.0015  Score=62.54  Aligned_cols=99  Identities=19%  Similarity=0.293  Sum_probs=57.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHH-Hc----CCc---------EE-----EEecc-ccC--------ChHHHHHHHHhhCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMAN-YL----KFD---------IY-----DMELA-SLR--------SNSDLRRLLVSTGN  292 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~-~l----~~~---------v~-----~l~~~-~~~--------~~~~l~~ll~~~~~  292 (455)
                      .+-++|.||.|+|||++.+.++. .+    |..         ++     .+... ++.        .-.++..++.....
T Consensus        31 g~~~~itG~N~~GKStll~~i~~~~~la~~G~~v~a~~~~~~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il~~~~~  110 (222)
T cd03287          31 GYCQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSATLSIFDSVLTRMGASDSIQHGMSTFMVELSETSHILSNCTS  110 (222)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHHhCCCEEEcCceEEeccceEEEEecCccccccccchHHHHHHHHHHHHHhCCC
Confidence            45689999999999999999988 22    221         11     01101 111        11445666777788


Q ss_pred             ceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCC
Q 047029          293 RSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERL  355 (455)
Q Consensus       293 ~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~L  355 (455)
                      +++++|||+..-..           ..+.......+++.+-..     .+..+|++|++.+..
T Consensus       111 ~sLvllDE~~~gT~-----------~~d~~~i~~~il~~l~~~-----~~~~~i~~TH~~~l~  157 (222)
T cd03287         111 RSLVILDELGRGTS-----------THDGIAIAYATLHYLLEE-----KKCLVLFVTHYPSLG  157 (222)
T ss_pred             CeEEEEccCCCCCC-----------hhhHHHHHHHHHHHHHhc-----cCCeEEEEcccHHHH
Confidence            99999999864211           011112223344443321     245788899887654

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

>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=97.21  E-value=0.008  Score=58.12  Aligned_cols=125  Identities=18%  Similarity=0.294  Sum_probs=75.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC---cEEEEeccc---------------cCChHHHH-----------HHHHhh-
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF---DIYDMELAS---------------LRSNSDLR-----------RLLVST-  290 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~---~v~~l~~~~---------------~~~~~~l~-----------~ll~~~-  290 (455)
                      +-.+.+.||+|||||+++..+-..+..   +++.+....               +.....+.           +..... 
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~~~n~~~~~~i~p~~i~~~~~~e~le~~l~~~k~~I~k~~~k~~   92 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITPEYNNEYYKYIWPDHIFKVFDKEELEYILIRQKEKIEKYIKKSP   92 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEecCCchhhhhhcchhhccccccHHHHHHHHHHHHHHHHHHhhhhc
Confidence            457899999999999999999887743   122221100               00111111           111111 


Q ss_pred             ----CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCcee
Q 047029          291 ----GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMD  366 (455)
Q Consensus       291 ----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d  366 (455)
                          ..+.+|++||+..-              ...+..+..+++.  |-    .-++.+|+.+...-.|++.++.  -++
T Consensus        93 ~~k~~~~~LiIlDD~~~~--------------~~k~~~l~~~~~~--gR----H~~is~i~l~Q~~~~lp~~iR~--n~~  150 (241)
T PF04665_consen   93 QKKNNPRFLIILDDLGDK--------------KLKSKILRQFFNN--GR----HYNISIIFLSQSYFHLPPNIRS--NID  150 (241)
T ss_pred             ccCCCCCeEEEEeCCCCc--------------hhhhHHHHHHHhc--cc----ccceEEEEEeeecccCCHHHhh--cce
Confidence                12689999997531              1112344555542  22    1347788888888899999877  788


Q ss_pred             EEEEeCCCCHHHHHHHHHHhhc
Q 047029          367 MHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       367 ~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      .++-+. -+....+.+++++..
T Consensus       151 y~i~~~-~s~~dl~~i~~~~~~  171 (241)
T PF04665_consen  151 YFIIFN-NSKRDLENIYRNMNI  171 (241)
T ss_pred             EEEEec-CcHHHHHHHHHhccc
Confidence            777775 467778888777654

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK06762 hypothetical protein; Provisional

Probab=97.21  E-value=0.00042  Score=62.72  Aligned_cols=33  Identities=15%  Similarity=0.261  Sum_probs=27.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +.-++|.|+||+||||+++.+++.++..++.++
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l~~~~~~i~   34 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERLGRGTLLVS   34 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeEEec
Confidence            456899999999999999999999965555554

>PF06431 Polyoma_lg_T_C: Polyomavirus large T antigen C-terminus; InterPro: IPR010932 The group of polyomaviruses is formed by the homonymous murine virus (Py) as well as other representative members such as the simian virus 40 (SV40) and the human BK and JC viruses []

Probab=97.21  E-value=0.0016  Score=65.77  Aligned_cols=144  Identities=19%  Similarity=0.221  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceE
Q 047029          216 KQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSI  295 (455)
Q Consensus       216 k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~I  295 (455)
                      .+.|.+.|+....        ++|.+|++||-||-.|||||+|+|+-+.+|-....+++..    ..|.--|.-+-..-.
T Consensus       138 ~~~i~~iL~~lv~--------N~PKkRy~lFkGPvNsGKTTlAAAlLdL~gG~~LNvN~p~----dkl~FELG~AiDQfm  205 (417)
T PF06431_consen  138 DDVILEILKCLVE--------NIPKKRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPP----DKLNFELGCAIDQFM  205 (417)
T ss_dssp             HHHHHHHHHHHHH--------TBTTB-EEEEE-STTSSHHHHHHHHHHHH-EEEE-TSS-T----TTHHHHHCCCTT-SE
T ss_pred             HHHHHHHHHHHhc--------CCCcceeEEEecCcCCchHHHHHHHHHhcCCceeecCCCh----hhcchhhheeeceEE
Confidence            3445555554444        4677899999999999999999999999987776666553    233333333335668


Q ss_pred             EEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccC-----CCce-----EEEEEcCCCCCCCccccCCCce
Q 047029          296 LVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSC-----GDER-----IIVFTTNYKERLDPALLRPGRM  365 (455)
Q Consensus       296 L~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~-----~~~~-----ivI~TTN~~~~Ld~allRpGR~  365 (455)
                      +++||+---..     ....-..+..-..+..|-..+||-..-.     -..+     --|+|+|. ..|+..+.-  ||
T Consensus       206 VvFEDVKGq~~-----~~~~Lp~G~G~~NLDNLRD~LDG~V~VNLErKH~NK~sQiFPPgIvTmNe-Y~iP~Tv~v--Rf  277 (417)
T PF06431_consen  206 VVFEDVKGQPS-----DNKDLPPGQGMNNLDNLRDYLDGAVKVNLERKHQNKRSQIFPPGIVTMNE-YKIPQTVKV--RF  277 (417)
T ss_dssp             EEEEEE--SST-----TTTT----SHHHHHHTTHHHHH-SS-EEEECSSSEEEEE----EEEEESS--B--HHHHT--TE
T ss_pred             EEEEecCCCcC-----CCCCCCCCCCcccchhhhhhccCceeechhhhhcccccccCCCceEeecc-ccCCcceee--ee
Confidence            88998752110     1111112334455667777888753211     0011     25678885 356788887  99


Q ss_pred             eEEEEeCCCCHHHHH
Q 047029          366 DMHIHMSYLTPGGFK  380 (455)
Q Consensus       366 d~~I~~~~p~~~~~~  380 (455)
                      ...+.|.. ....++
T Consensus       278 ~~~~~F~~-k~~l~~  291 (417)
T PF06431_consen  278 CKVLDFRP-KPNLRK  291 (417)
T ss_dssp             EEEEE-----HHHHH
T ss_pred             EeeEeccc-cHHHHH
Confidence            88888754 333333

Their large T antigen (T-ag) protein binds to and activates DNA replication from the origin of DNA replication (ori). Insofar as is known, the T-ag binds to the origin first as a monomer to its pentanucleotide recognition element. The monomers are then thought to assemble into hexamers and double hexamers, which constitute the form that is active in initiation of DNA replication. When bound to the ori, T-ag double hexamers encircle DNA []. T-ag is a multidomain protein that contains an N-terminal J domain, which mediates protein interactions (see PDOC00553 from PROSITEDOC, IPR001623 from INTERPRO), a central origin-binding domain (OBD), and a C-terminal superfamily 3 helicase domain (see PDOC51206 from PROSITEDOC, IPR010932 from INTERPRO) []. This entry represents the helicase domain of LTag, which assembles into a hexameric structure containing a positively charged central channel that can bind both single- and double-stranded DNA []. ATP binding and hydrolysis trigger large conformational changes which are thought to be coupled to the melting of origin DNA and the unwinding of duplex DNA []. These conformational changes cause the angles and orientations between regions of a monomer to alter, creating what was described as an "iris"-like motion in the hexamer. In addition to this, six beta hairpins on the channel surface move longitudinally along the central channel, possibly serving as a motor for pulling DNA into the LTag double hexamer for unwinding.; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 2H1L_H 1SVO_A 1SVM_E 1SVL_B 1N25_A 4E2I_K.

>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]

Probab=97.20  E-value=0.0012  Score=59.06  Aligned_cols=164  Identities=20%  Similarity=0.318  Sum_probs=88.1

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCC
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDE  318 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~  318 (455)
                      +.+-.+++-|++||||||++++++.+++++|++  ..++.+..+..+.=..++      +.|=|..              
T Consensus        10 ~~k~~i~vmGvsGsGKSTigk~L~~~l~~~F~d--gDd~Hp~~NveKM~~Gip------LnD~DR~--------------   67 (191)
T KOG3354|consen   10 PFKYVIVVMGVSGSGKSTIGKALSEELGLKFID--GDDLHPPANVEKMTQGIP------LNDDDRW--------------   67 (191)
T ss_pred             CCceeEEEEecCCCChhhHHHHHHHHhCCcccc--cccCCCHHHHHHHhcCCC------CCccccc--------------
Confidence            345578889999999999999999999988864  445666666655533221      1111111              


Q ss_pred             CcchhhHhhhhhhhhcccccCCCceEEEEEcC----CCCCCCcccc--CCCcee-EEEEeCCCCHHHHHHHHHHhhcccC
Q 047029          319 NNSQVTLSGLLNFVDGLWSSCGDERIIVFTTN----YKERLDPALL--RPGRMD-MHIHMSYLTPGGFKILAFNYLKIKS  391 (455)
Q Consensus       319 ~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN----~~~~Ld~all--RpGR~d-~~I~~~~p~~~~~~~L~~~~l~~~~  391 (455)
                      +.-...-..+...++   +   +..+|++.+.    +.+.|-.++-  +||.++ ..++|-+... .+..|+++.....+
T Consensus        68 pWL~~i~~~~~~~l~---~---~q~vVlACSaLKk~YRdILr~sl~~gk~~~~~~~~l~fi~l~~-s~evi~~Rl~~R~g  140 (191)
T KOG3354|consen   68 PWLKKIAVELRKALA---S---GQGVVLACSALKKKYRDILRHSLKDGKPGKCPESQLHFILLSA-SFEVILKRLKKRKG  140 (191)
T ss_pred             HHHHHHHHHHHHHhh---c---CCeEEEEhHHHHHHHHHHHHhhcccCCccCCccceEEEeeeec-cHHHHHHHHhhccc
Confidence            011111111222222   1   3345555443    2233333333  455555 5555555554 67788888888888


Q ss_pred             CCchHHHHH-hhccccCchh--HHHh----ccCCHHHHHHHHHHHHH
Q 047029          392 HSMFDEIEE-LIKEVEVTPA--EEFM----KSEDADVALNGLVDFLL  431 (455)
Q Consensus       392 ~~l~~ei~~-ll~~~~~tpa--~~l~----~~~~~~~al~~l~~~l~  431 (455)
                      |.+..++-+ -+...+.-.+  +.++    ....++..+..+++.+.
T Consensus       141 HFMp~~lleSQf~~LE~p~~~e~div~isv~~~~~e~iv~tI~k~~~  187 (191)
T KOG3354|consen  141 HFMPADLLESQFATLEAPDADEEDIVTISVKTYSVEEIVDTIVKMVA  187 (191)
T ss_pred             ccCCHHHHHHHHHhccCCCCCccceEEEeeccCCHHHHHHHHHHHHH
Confidence            877655432 1222222122  2333    23567777776666554

>PRK09354 recA recombinase A; Provisional

Probab=97.20  E-value=0.0015  Score=66.48  Aligned_cols=70  Identities=16%  Similarity=0.247  Sum_probs=45.1

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc---------------------CChHHHHHHH---Hh
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL---------------------RSNSDLRRLL---VS  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~---------------------~~~~~l~~ll---~~  289 (455)
                      |++..+-+++|||||||||+|+..++...   |...+.++...-                     .+..+...++   ..
T Consensus        56 Gip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~  135 (349)
T PRK09354         56 GLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVR  135 (349)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhh
Confidence            67777779999999999999998776443   555555544321                     1111121222   22


Q ss_pred             hCCceEEEEecccchhh
Q 047029          290 TGNRSILVIEDIDCSIE  306 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~~  306 (455)
                      .....+||||-+-++.+
T Consensus       136 s~~~~lIVIDSvaaL~~  152 (349)
T PRK09354        136 SGAVDLIVVDSVAALVP  152 (349)
T ss_pred             cCCCCEEEEeChhhhcc
Confidence            24678999999998864

>PRK00300 gmk guanylate kinase; Provisional

Probab=97.19  E-value=0.0027  Score=59.42  Aligned_cols=27  Identities=33%  Similarity=0.426  Sum_probs=24.2

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcC
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +..-+.|.||+|+|||+|++.+++.+.
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            356799999999999999999999876

>PRK13764 ATPase; Provisional

Probab=97.19  E-value=0.0011  Score=71.90  Aligned_cols=62  Identities=23%  Similarity=0.400  Sum_probs=40.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC---CcEEEEe------cc----cc---C-ChHHHHHHHHhhCCceEEEEecccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK---FDIYDME------LA----SL---R-SNSDLRRLLVSTGNRSILVIEDIDC  303 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~---~~v~~l~------~~----~~---~-~~~~l~~ll~~~~~~~IL~iDEiD~  303 (455)
                      ++|+|+.||||+||||+++|+++++.   ..+..++      +.    ++   . +...+.+.+. ..+|.+|++||+-.
T Consensus       257 ~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~TiEDp~El~~~~~i~q~~~~~~~~~~~~~~lL-R~rPD~IivGEiRd  335 (602)
T PRK13764        257 AEGILIAGAPGAGKSTFAQALAEFYADMGKIVKTMESPRDLQVPPEITQYSKLEGSMEETADILL-LVRPDYTIYDEMRK  335 (602)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEECCCccccCCCcceEEeeccccHHHHHHHHH-hhCCCEEEECCCCC
Confidence            56899999999999999999999884   3332332      11    11   0 1112222221 24699999999964

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.18  E-value=0.0013  Score=64.74  Aligned_cols=25  Identities=32%  Similarity=0.588  Sum_probs=23.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .++++.||||+||||+.+++++.+.
T Consensus       112 ~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       112 LNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCccC
Confidence            5899999999999999999999884

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.

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=97.18  E-value=0.00097  Score=63.02  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=20.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      .+-++|.||.|+|||++++.++.
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~   51 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIAL   51 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35699999999999999999974

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

>COG1855 ATPase (PilT family) [General function prediction only]

Probab=97.18  E-value=0.00039  Score=71.64  Aligned_cols=97  Identities=23%  Similarity=0.313  Sum_probs=61.5

Q ss_pred             cceeEEEeeCcchhHHHHHhhhhHHHHHHHHHHhccceEEEeec--------------------CcccccccCC--CCCC
Q 047029          149 AHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVIKLYSL--------------------CAADAINLDH--PSTF  206 (455)
Q Consensus       149 ~~~~~~l~~~~~~~~~vl~~yl~~v~~~~~~~~~~~~~~~~~~~--------------------~~w~~~~~~~--p~tf  206 (455)
                      ++.+..|+=..-.+ .-++.+-..+.+.++...  +..+.+-..                    ..|.-....+  ..++
T Consensus       170 ~~k~v~l~d~pl~~-~ele~ia~eIi~~a~~~~--~sfIEi~r~GatVvQlrn~RIvIarPPfSd~~EITavRPvvk~~l  246 (604)
T COG1855         170 EWKLVRLSDKPLTR-EELEEIAREIIERAKRDP--DSFIEIDRPGATVVQLRNYRIVIARPPFSDRWEITAVRPVVKLSL  246 (604)
T ss_pred             cEEEEEcCCccCCH-HHHHHHHHHHHHHHhhCc--CceEEEccCCceEEEeccEEEEEecCCCCCceEEEEEeeeEEech
Confidence            45566664333333 346677777777776532  222222111                    2343211111  2368


Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ++..+++.+++.|.+.                  .+|+|+.||||.||||+|+|+|.++.
T Consensus       247 edY~L~dkl~eRL~er------------------aeGILIAG~PGaGKsTFaqAlAefy~  288 (604)
T COG1855         247 EDYGLSDKLKERLEER------------------AEGILIAGAPGAGKSTFAQALAEFYA  288 (604)
T ss_pred             hhcCCCHHHHHHHHhh------------------hcceEEecCCCCChhHHHHHHHHHHH
Confidence            8888898888888664                  35999999999999999999999983

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=97.17  E-value=0.0014  Score=61.53  Aligned_cols=21  Identities=24%  Similarity=0.510  Sum_probs=19.8

Q ss_pred             ceeEEECCCCCChHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMA  262 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA  262 (455)
                      +.++|.||.|+|||++.+.++
T Consensus        29 ~~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          29 RVLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            469999999999999999998

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 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, a

>PRK06547 hypothetical protein; Provisional

Probab=97.17  E-value=0.00046  Score=63.46  Aligned_cols=34  Identities=26%  Similarity=0.426  Sum_probs=29.4

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      .+.-|++.||+|+|||++++.+|+.++..++.++
T Consensus        14 ~~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~d   47 (172)
T PRK06547         14 GMITVLIDGRSGSGKTTLAGALAARTGFQLVHLD   47 (172)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhCCCeeccc
Confidence            3567899999999999999999999988777554

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.16  E-value=0.0013  Score=59.75  Aligned_cols=27  Identities=26%  Similarity=0.370  Sum_probs=23.5

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .+...+.|.||+|+|||||++.+++.+
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          24 RRGEVHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            335568999999999999999999876

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.

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.15  E-value=0.0044  Score=72.40  Aligned_cols=132  Identities=16%  Similarity=0.195  Sum_probs=83.0

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh------------H--HH-H-HHHHhhCCceEEEEecccchh
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN------------S--DL-R-RLLVSTGNRSILVIEDIDCSI  305 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~------------~--~l-~-~ll~~~~~~~IL~iDEiD~l~  305 (455)
                      -.+|+.||..+|||+++..+|...|..++.++-.+-...            .  .+ . -+.....++-.|++||+.-..
T Consensus       889 fP~LiQGpTSSGKTSMI~yla~~tghkfVRINNHEHTdlqeYiGTyvTdd~G~lsFkEGvLVeAlR~GyWIVLDELNLAp  968 (4600)
T COG5271         889 FPLLIQGPTSSGKTSMILYLARETGHKFVRINNHEHTDLQEYIGTYVTDDDGSLSFKEGVLVEALRRGYWIVLDELNLAP  968 (4600)
T ss_pred             CcEEEecCCCCCcchHHHHHHHHhCccEEEecCcccchHHHHhhceeecCCCceeeehhHHHHHHhcCcEEEeeccccCc
Confidence            359999999999999999999999999999876442111            1  01 1 122333567799999998532


Q ss_pred             hhhhhcCCCCCCCCcchhhHhhhhhhhhccccc-------CCCceEEEEEcCCCC------CCCccccCCCceeEEEEeC
Q 047029          306 ELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS-------CGDERIIVFTTNYKE------RLDPALLRPGRMDMHIHMS  372 (455)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~-------~~~~~ivI~TTN~~~------~Ld~allRpGR~d~~I~~~  372 (455)
                      .             .--..++.||.---.+.-.       ..++..+++|-|+|.      .|..|++.  || ..++|.
T Consensus       969 T-------------DVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~YgGRK~LSrAFRN--RF-lE~hFd 1032 (4600)
T COG5271         969 T-------------DVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYGGRKGLSRAFRN--RF-LEMHFD 1032 (4600)
T ss_pred             H-------------HHHHHHHHhhccccceecCCcceeeccCCCeeEEeecCCCccccchHHHHHHHHh--hh-Hhhhcc
Confidence            1             1112233333211111100       113345666777763      47778887  98 678888


Q ss_pred             CCCHHHHHHHHHHhhcc
Q 047029          373 YLTPGGFKILAFNYLKI  389 (455)
Q Consensus       373 ~p~~~~~~~L~~~~l~~  389 (455)
                      .-..++..+|++..+.+
T Consensus      1033 dipedEle~ILh~rc~i 1049 (4600)
T COG5271        1033 DIPEDELEEILHGRCEI 1049 (4600)
T ss_pred             cCcHHHHHHHHhccCcc
Confidence            87788888887766554

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.15  E-value=0.0015  Score=57.44  Aligned_cols=29  Identities=28%  Similarity=0.437  Sum_probs=25.4

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCCc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKFD  268 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~~  268 (455)
                      +..-++|.|+.|+|||++++++++.++..
T Consensus        21 ~~~~i~l~G~lGaGKTtl~~~l~~~lg~~   49 (133)
T TIGR00150        21 FGTVVLLKGDLGAGKTTLVQGLLQGLGIQ   49 (133)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            34568999999999999999999999753

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.

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=97.14  E-value=0.0011  Score=67.22  Aligned_cols=62  Identities=27%  Similarity=0.355  Sum_probs=47.5

Q ss_pred             Cc-ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-CCcEEEEec
Q 047029          206 FD-TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-KFDIYDMEL  274 (455)
Q Consensus       206 fd-~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-~~~v~~l~~  274 (455)
                      |+ ++.|.++..+++++.+.....+       +-.-++-++|.||+|+|||++++.+.+.+ .+++|.+..
T Consensus        59 f~~~~~G~~~~i~~lV~~fk~AA~g-------~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y~~Y~l~~  122 (358)
T PF08298_consen   59 FEDEFYGMEETIERLVNYFKSAAQG-------LEERKRILLLLGPVGGGKSSLAELLKRGLEEYPIYTLKG  122 (358)
T ss_pred             ccccccCcHHHHHHHHHHHHHHHhc-------cCccceEEEEECCCCCCHHHHHHHHHHHhheEEEEEecC
Confidence            55 8899999999998877643332       22336789999999999999999999988 456666543

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=97.14  E-value=0.0014  Score=62.49  Aligned_cols=39  Identities=23%  Similarity=0.325  Sum_probs=29.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEecc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMELA  275 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~~  275 (455)
                      |++....+|+.||||||||+++..++...    |..++.+...
T Consensus        15 Gip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~e   57 (226)
T PF06745_consen   15 GIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFE   57 (226)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESS
T ss_pred             CCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEec
Confidence            77778889999999999999998776433    6777766653

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.14  E-value=0.00044  Score=63.59  Aligned_cols=31  Identities=19%  Similarity=0.383  Sum_probs=26.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .-+++.||||+||||+++.+|..+|+..+..
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~~~~g~~~~~~   34 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIVEKYGFTHLST   34 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            3688999999999999999999998765543

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.

>PRK14528 adenylate kinase; Provisional

Probab=97.13  E-value=0.00044  Score=64.26  Aligned_cols=30  Identities=23%  Similarity=0.506  Sum_probs=26.9

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .+++.||||+|||++++.+|..++++.+.+
T Consensus         3 ~i~i~G~pGsGKtt~a~~la~~~~~~~is~   32 (186)
T PRK14528          3 NIIFMGPPGAGKGTQAKILCERLSIPQIST   32 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeeeC
Confidence            589999999999999999999999877654

>PRK02496 adk adenylate kinase; Provisional

Probab=97.12  E-value=0.0004  Score=64.08  Aligned_cols=29  Identities=28%  Similarity=0.565  Sum_probs=26.2

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +++.||||+|||++++.+|..+++..+..
T Consensus         4 i~i~G~pGsGKst~a~~la~~~~~~~i~~   32 (184)
T PRK02496          4 LIFLGPPGAGKGTQAVVLAEHLHIPHIST   32 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEEh
Confidence            88999999999999999999999877654

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain

Probab=97.12  E-value=0.0028  Score=63.52  Aligned_cols=82  Identities=16%  Similarity=0.218  Sum_probs=49.1

Q ss_pred             CHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEE----EeccccCChHHHHHHH
Q 047029          212 DPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYD----MELASLRSNSDLRRLL  287 (455)
Q Consensus       212 ~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~----l~~~~~~~~~~l~~ll  287 (455)
                      ++++++-+.+.+-..+..       .....+-++|+|+.|+|||+++..+...+|-....    +.+.++.+..   .-+
T Consensus        54 d~~~~~~l~~~lg~~L~~-------~~~~~~~~~l~G~g~nGKStl~~~l~~l~G~~~~~~~~~~~~~~~~~~~---f~~  123 (304)
T TIGR01613        54 DNELIEYLQRVIGYSLTG-------NYTEQKLFFLYGNGGNGKSTFQNLLSNLLGDYATTAVASLKMNEFQEHR---FGL  123 (304)
T ss_pred             CHHHHHHHHHHHhHHhcC-------CCCceEEEEEECCCCCcHHHHHHHHHHHhChhhccCCcchhhhhccCCC---chh
Confidence            444555555554433322       13446789999999999999999999988754321    1122221101   112


Q ss_pred             HhhCCceEEEEecccc
Q 047029          288 VSTGNRSILVIEDIDC  303 (455)
Q Consensus       288 ~~~~~~~IL~iDEiD~  303 (455)
                      .....+.++++||++.
T Consensus       124 a~l~gk~l~~~~E~~~  139 (304)
T TIGR01613       124 ARLEGKRAVIGDEVQK  139 (304)
T ss_pred             hhhcCCEEEEecCCCC
Confidence            3344577899999874

This model represents a clade within a larger family of proteins from viruses of bacteria and animals. Members of this family are found in phage and plasmids of bacteria and archaea only. The model describes a domain of about 300 residues, found generally toward the protein C-terminus.

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.12  E-value=0.0017  Score=68.21  Aligned_cols=84  Identities=26%  Similarity=0.444  Sum_probs=56.7

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCce-eEEECCCCCChHHHHHHHHHHcCCc---EEEEe-----
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRG-YLLYGPPGTGKSSLIAAMANYLKFD---IYDME-----  273 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg-~LL~GPpGTGKTsla~alA~~l~~~---v~~l~-----  273 (455)
                      .-+|+.+.+.+...+.+.+.+..               |.| +|+.||.|+||||..-++.++++.+   ++.++     
T Consensus       234 ~l~l~~Lg~~~~~~~~~~~~~~~---------------p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~  298 (500)
T COG2804         234 ILDLEKLGMSPFQLARLLRLLNR---------------PQGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEY  298 (500)
T ss_pred             cCCHHHhCCCHHHHHHHHHHHhC---------------CCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeee
Confidence            34688999988888877776642               556 6777999999999999999999543   33221     


Q ss_pred             -cccc-----------CChHHHHHHHHhhCCceEEEEecccc
Q 047029          274 -LASL-----------RSNSDLRRLLVSTGNRSILVIEDIDC  303 (455)
Q Consensus       274 -~~~~-----------~~~~~l~~ll~~~~~~~IL~iDEiD~  303 (455)
                       ...+           .-..-++.++.  ..|.||.+.||-.
T Consensus       299 ~~~gI~Q~qVN~k~gltfa~~LRa~LR--qDPDvImVGEIRD  338 (500)
T COG2804         299 QLPGINQVQVNPKIGLTFARALRAILR--QDPDVIMVGEIRD  338 (500)
T ss_pred             ecCCcceeecccccCCCHHHHHHHHhc--cCCCeEEEeccCC
Confidence             1111           01133333333  3699999999964

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.10  E-value=0.00045  Score=62.18  Aligned_cols=28  Identities=25%  Similarity=0.520  Sum_probs=25.6

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      +-+.|||||||||+++-+|+.+|++++.
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl~~vs   30 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGLKLVS   30 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCCceee
Confidence            5678999999999999999999999874

>TIGR00767 rho transcription termination factor Rho

Probab=97.10  E-value=0.0026  Score=65.75  Aligned_cols=25  Identities=28%  Similarity=0.537  Sum_probs=22.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .-+++.||||||||++++.+++.+.
T Consensus       169 q~~~IvG~~g~GKTtL~~~i~~~I~  193 (415)
T TIGR00767       169 QRGLIVAPPKAGKTVLLQKIAQAIT  193 (415)
T ss_pred             CEEEEECCCCCChhHHHHHHHHhhc
Confidence            3499999999999999999999864

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

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=97.10  E-value=0.00096  Score=75.11  Aligned_cols=98  Identities=16%  Similarity=0.335  Sum_probs=54.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc-----CC----------cEEEEeccccCC--------------hHHHHHHHHhhC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL-----KF----------DIYDMELASLRS--------------NSDLRRLLVSTG  291 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l-----~~----------~v~~l~~~~~~~--------------~~~l~~ll~~~~  291 (455)
                      .+.++|+||.+.|||++.+.++-..     |+          ++++--...+..              -..+..++....
T Consensus       327 ~~~~iITGpN~gGKTt~lktigl~~~maq~G~~vpa~~~~~i~~~~~i~~~ig~~~si~~~lStfS~~m~~~~~Il~~~~  406 (782)
T PRK00409        327 KTVLVITGPNTGGKTVTLKTLGLAALMAKSGLPIPANEPSEIPVFKEIFADIGDEQSIEQSLSTFSGHMTNIVRILEKAD  406 (782)
T ss_pred             ceEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcccCCCccccccceEEEecCCccchhhchhHHHHHHHHHHHHHHhCC
Confidence            4578999999999999999987542     32          222111111111              122334445556


Q ss_pred             CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCC
Q 047029          292 NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERL  355 (455)
Q Consensus       292 ~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~L  355 (455)
                      .++++++||+..-.+           ..........++..+-.      .+..+|+||++.+..
T Consensus       407 ~~sLvLlDE~~~GtD-----------p~eg~ala~aile~l~~------~~~~vIitTH~~el~  453 (782)
T PRK00409        407 KNSLVLFDELGAGTD-----------PDEGAALAISILEYLRK------RGAKIIATTHYKELK  453 (782)
T ss_pred             cCcEEEecCCCCCCC-----------HHHHHHHHHHHHHHHHH------CCCEEEEECChHHHH
Confidence            899999999985321           11111222334444321      235788899876543

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=97.09  E-value=0.00043  Score=63.51  Aligned_cols=32  Identities=28%  Similarity=0.312  Sum_probs=27.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .+-++|.||||+||||++++++..++..++.+
T Consensus         2 ~~~i~l~G~~gsGKst~a~~l~~~~~~~~~~~   33 (175)
T cd00227           2 GRIIILNGGSSAGKSSIARALQSVLAEPWLHF   33 (175)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhhCCCcccc
Confidence            35689999999999999999999987665544

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

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.08  E-value=0.0037  Score=60.31  Aligned_cols=49  Identities=27%  Similarity=0.205  Sum_probs=36.0

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHHHHHH
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDLRRLL  287 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l~~ll  287 (455)
                      |++....+|++||||||||+++..++.+.   |.+.+.+....  +..++.+-+
T Consensus        17 G~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee--~~~~i~~~~   68 (237)
T TIGR03877        17 GIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE--HPVQVRRNM   68 (237)
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC--CHHHHHHHH
Confidence            78888889999999999999998766542   66777776543  444554444

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.

>PF13245 AAA_19: Part of AAA domain

Probab=97.05  E-value=0.00093  Score=52.93  Aligned_cols=23  Identities=48%  Similarity=0.885  Sum_probs=17.0

Q ss_pred             eeEEECCCCCChH-HHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKS-SLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKT-sla~alA~~l  265 (455)
                      -+++.|||||||| ++++.++..+
T Consensus        12 ~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   12 LFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH
Confidence            4566999999999 5555555555

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=97.04  E-value=0.002  Score=61.40  Aligned_cols=61  Identities=20%  Similarity=0.338  Sum_probs=38.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH-----cCCcE---------EEEecccc------C-Ch-------HHHHHHHHhhCCc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY-----LKFDI---------YDMELASL------R-SN-------SDLRRLLVSTGNR  293 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~-----l~~~v---------~~l~~~~~------~-~~-------~~l~~ll~~~~~~  293 (455)
                      +-++|.||.|+|||++.+.+|..     .+..+         +.--...+      . ..       ..+..++....++
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~~~~~l~~~g~~vp~~~~~i~~~~~i~~~~~~~~~ls~g~s~f~~e~~~l~~~l~~~~~~  110 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVALIALLAQIGSFVPASKAEIGVVDRIFTRIGASDDLAGGRSTFMVEMVETANILNNATER  110 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHHHHHHHhccCCeeccccceecceeeEeccCCchhhhccCcchHHHHHHHHHHHHHhCCCC
Confidence            56899999999999999999742     22211         11001111      0 11       1345566666789


Q ss_pred             eEEEEeccc
Q 047029          294 SILVIEDID  302 (455)
Q Consensus       294 ~IL~iDEiD  302 (455)
                      +++++||..
T Consensus       111 ~llllDEp~  119 (216)
T cd03284         111 SLVLLDEIG  119 (216)
T ss_pred             eEEEEecCC
Confidence            999999984

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 clam

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.04  E-value=0.00055  Score=65.89  Aligned_cols=31  Identities=23%  Similarity=0.519  Sum_probs=27.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      .++|.||||+||||+++.+|+.+|+..+.++
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g~~~is~g   38 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKENLKHINMG   38 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEECC
Confidence            4999999999999999999999998776553

>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=97.04  E-value=0.0061  Score=61.13  Aligned_cols=30  Identities=37%  Similarity=0.334  Sum_probs=25.9

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcCCc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFD  268 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~~~  268 (455)
                      ..+..+-|+||=|+|||++++.+-+.+.-.
T Consensus        18 ~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~   47 (325)
T PF07693_consen   18 DDPFVIGLYGEWGSGKSSFLNMLKEELKED   47 (325)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            457789999999999999999998888443

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 [].

>PLN02200 adenylate kinase family protein

Probab=97.03  E-value=0.00069  Score=65.40  Aligned_cols=30  Identities=20%  Similarity=0.342  Sum_probs=26.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      +.-+++.||||+||||+++.+|+.+|+..+
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~~~g~~hi   72 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVETFGFKHL   72 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            456899999999999999999999987643

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=97.03  E-value=0.0022  Score=62.89  Aligned_cols=65  Identities=23%  Similarity=0.366  Sum_probs=52.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHH------HcCCcEEEEeccccCChHHHHHHHHhh-----------------CCceEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMAN------YLKFDIYDMELASLRSNSDLRRLLVST-----------------GNRSILV  297 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~------~l~~~v~~l~~~~~~~~~~l~~ll~~~-----------------~~~~IL~  297 (455)
                      ...+||.||.|.|||.|++.+-.      .+.-.++.++|..+.++..+..+|...                 .....||
T Consensus       208 r~p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~~r~gllrsadggmlf  287 (531)
T COG4650         208 RAPILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARESREGLLRSADGGMLF  287 (531)
T ss_pred             cCCeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchhhhhhhhccCCCceEe
Confidence            55799999999999999998853      457789999999998887777777433                 2357999


Q ss_pred             Eecccchh
Q 047029          298 IEDIDCSI  305 (455)
Q Consensus       298 iDEiD~l~  305 (455)
                      +|||..+.
T Consensus       288 ldeigelg  295 (531)
T COG4650         288 LDEIGELG  295 (531)
T ss_pred             hHhhhhcC
Confidence            99998763

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

Probab=97.02  E-value=0.0026  Score=61.99  Aligned_cols=27  Identities=30%  Similarity=0.530  Sum_probs=24.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      ..-+++.||+|||||+|++.+++.+..
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~   42 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITK   42 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcccc
Confidence            446999999999999999999998854

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.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=97.02  E-value=0.003  Score=57.73  Aligned_cols=25  Identities=32%  Similarity=0.586  Sum_probs=22.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||+|+|||+|++++++.+
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc
Confidence            4458999999999999999999976

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>TIGR01351 adk adenylate kinases

Probab=97.01  E-value=0.0006  Score=64.46  Aligned_cols=29  Identities=28%  Similarity=0.517  Sum_probs=26.1

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +++.||||+||||+++.+|..+|+..+.+
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g~~~is~   30 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYGLPHIST   30 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeeeh
Confidence            78999999999999999999999877653

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=97.01  E-value=0.003  Score=58.42  Aligned_cols=25  Identities=32%  Similarity=0.632  Sum_probs=22.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .--+.+.||.|+|||||.+.+|..+
T Consensus        28 Ge~~~i~G~NG~GKTtLLRilaGLl   52 (209)
T COG4133          28 GEALQITGPNGAGKTTLLRILAGLL   52 (209)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHccc
Confidence            3458889999999999999999987

>TIGR03263 guanyl_kin guanylate kinase

Probab=97.01  E-value=0.0019  Score=59.05  Aligned_cols=25  Identities=32%  Similarity=0.448  Sum_probs=22.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      -++|.||+|+|||++++.|++....
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~~~~   27 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEEDPN   27 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHccCcc
Confidence            4789999999999999999997644

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.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=97.00  E-value=0.0088  Score=67.31  Aligned_cols=121  Identities=21%  Similarity=0.316  Sum_probs=76.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc----------CCcEEEEeccccCC--------hHHHHHHHHh---hCCceEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYDMELASLRS--------NSDLRRLLVS---TGNRSILVIE  299 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~l~~~~~~~--------~~~l~~ll~~---~~~~~IL~iD  299 (455)
                      +++-+|.|.||+|||.++.-+|+..          +..++.+++..+..        +..+..++..   ...+.|||||
T Consensus       208 k~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~aGa~~rge~E~rlk~l~k~v~~~~~gvILfig  287 (898)
T KOG1051|consen  208 KNNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVAGAKRRGEFEERLKELLKEVESGGGGVILFLG  287 (898)
T ss_pred             CCCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhcccCcccchHHHHHHHHHHHHHhcCCCcEEEEec
Confidence            5788999999999999999999987          34556666654421        3455556554   3467899999


Q ss_pred             cccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEE-EcCCC----CCCCccccCCCceeEEEEeCCC
Q 047029          300 DIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVF-TTNYK----ERLDPALLRPGRMDMHIHMSYL  374 (455)
Q Consensus       300 EiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~-TTN~~----~~Ld~allRpGR~d~~I~~~~p  374 (455)
                      |++.+......         ........+|..+-+.     ++.-+|+ |||..    -.=||++-|  ||+. +.++.|
T Consensus       288 elh~lvg~g~~---------~~~~d~~nlLkp~L~r-----g~l~~IGatT~e~Y~k~iekdPalEr--rw~l-~~v~~p  350 (898)
T KOG1051|consen  288 ELHWLVGSGSN---------YGAIDAANLLKPLLAR-----GGLWCIGATTLETYRKCIEKDPALER--RWQL-VLVPIP  350 (898)
T ss_pred             ceeeeecCCCc---------chHHHHHHhhHHHHhc-----CCeEEEecccHHHHHHHHhhCcchhh--Ccce-eEeccC
Confidence            99998752111         1122223333333221     2355565 55421    124899999  9975 667888


Q ss_pred             CHHH
Q 047029          375 TPGG  378 (455)
Q Consensus       375 ~~~~  378 (455)
                      +.+.
T Consensus       351 S~~~  354 (898)
T KOG1051|consen  351 SVEN  354 (898)
T ss_pred             cccc
Confidence            7655

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=97.00  E-value=0.002  Score=59.75  Aligned_cols=61  Identities=13%  Similarity=0.310  Sum_probs=38.3

Q ss_pred             eEEECCCCCChHHHHHHHHH-H----cCCcE---------E-----EEeccc-cC--------ChHHHHHHHHhhCCceE
Q 047029          244 YLLYGPPGTGKSSLIAAMAN-Y----LKFDI---------Y-----DMELAS-LR--------SNSDLRRLLVSTGNRSI  295 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~-~----l~~~v---------~-----~l~~~~-~~--------~~~~l~~ll~~~~~~~I  295 (455)
                      ++|+||.|+|||++++.++- .    .|..+         +     .+...+ +.        .-..+..++.....|++
T Consensus         2 ~~ltG~N~~GKst~l~~i~~~~~la~~G~~v~a~~~~~~~~d~il~~~~~~d~~~~~~s~fs~~~~~l~~~l~~~~~~~l   81 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVGLIVIMAQIGSFVPAESAELPVFDRIFTRIGASDSLAQGLSTFMVEMKETANILKNATENSL   81 (185)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHHHhCCCeeehheEecccceEEEEeCCCCchhccccHHHHHHHHHHHHHHhCCCCeE
Confidence            68999999999999999983 2    23221         1     111111 10        11234445555568999


Q ss_pred             EEEecccch
Q 047029          296 LVIEDIDCS  304 (455)
Q Consensus       296 L~iDEiD~l  304 (455)
                      +++||...-
T Consensus        82 lllDEp~~g   90 (185)
T smart00534       82 VLLDELGRG   90 (185)
T ss_pred             EEEecCCCC
Confidence            999999754

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=97.00  E-value=0.0032  Score=63.52  Aligned_cols=40  Identities=18%  Similarity=0.210  Sum_probs=30.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---------CCcEEEEeccc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---------KFDIYDMELAS  276 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---------~~~v~~l~~~~  276 (455)
                      |++...-++++||||||||+++..+|-..         +..+++++...
T Consensus        98 Gi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~  146 (317)
T PRK04301         98 GIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEG  146 (317)
T ss_pred             CccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCC
Confidence            67777789999999999999999998653         23566665543

>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=96.98  E-value=0.0012  Score=51.12  Aligned_cols=29  Identities=24%  Similarity=0.377  Sum_probs=23.3

Q ss_pred             eEEECCCCCChHHHHHHHHHHc-CCcEEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL-KFDIYDM  272 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l-~~~v~~l  272 (455)
                      +.+.|+||+|||++++++++.+ +.++..+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l~~~~~~~i   31 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQLGGRSVVVL   31 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCCEEEE
Confidence            5788999999999999999997 3344433

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.

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.98  E-value=0.00068  Score=64.35  Aligned_cols=29  Identities=28%  Similarity=0.487  Sum_probs=26.4

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      ++++||||+|||++++.+|..+++..+.+
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~~~~~is~   31 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKYGIPHIST   31 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence            89999999999999999999999877654

>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=96.97  E-value=0.00054  Score=58.51  Aligned_cols=22  Identities=32%  Similarity=0.579  Sum_probs=21.0

Q ss_pred             eEEECCCCCChHHHHHHHHHHc
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |+|.|+||+||||+++.|++.+
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999998

...

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.96  E-value=0.0021  Score=64.92  Aligned_cols=62  Identities=21%  Similarity=0.347  Sum_probs=41.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEecc-cc------------CChHHHHHHHHhh--CCceEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELA-SL------------RSNSDLRRLLVST--GNRSILVIED  300 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~-~~------------~~~~~l~~ll~~~--~~~~IL~iDE  300 (455)
                      +.++|+.||+|+||||+++|++.++     +..++.++-. ++            ...-.+.+++...  .+|..|++-|
T Consensus       144 ~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiEd~~El~~~~~n~v~l~~~~~~~~~~lv~~aLR~~PD~IivGE  223 (323)
T PRK13833        144 RLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEIQCAAENAVALHTSDTVDMARLLKSTMRLRPDRIIVGE  223 (323)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEecCCcccccCCCCEEEeccCCCcCHHHHHHHHhCCCCCEEEEee
Confidence            5689999999999999999999986     2334443311 11            1112344444333  3689999999


Q ss_pred             cc
Q 047029          301 ID  302 (455)
Q Consensus       301 iD  302 (455)
                      +-
T Consensus       224 iR  225 (323)
T PRK13833        224 VR  225 (323)
T ss_pred             cC
Confidence            85

>TIGR00416 sms DNA repair protein RadA

Probab=96.94  E-value=0.0035  Score=66.33  Aligned_cols=69  Identities=23%  Similarity=0.284  Sum_probs=45.8

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc--------------------CChHHHHHHHHh--hC
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL--------------------RSNSDLRRLLVS--TG  291 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~--------------------~~~~~l~~ll~~--~~  291 (455)
                      |+++..-+||+|+||+|||+|+..+|..+   +.++++++..+-                    .....+..+...  ..
T Consensus        90 Gi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs~~qi~~ra~rlg~~~~~l~~~~e~~~~~I~~~i~~~  169 (454)
T TIGR00416        90 GIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEESLQQIKMRAIRLGLPEPNLYVLSETNWEQICANIEEE  169 (454)
T ss_pred             CccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCCHHHHHHHHHHcCCChHHeEEcCCCCHHHHHHHHHhc
Confidence            67777789999999999999999998765   346666654321                    001112222221  23


Q ss_pred             CceEEEEecccchh
Q 047029          292 NRSILVIEDIDCSI  305 (455)
Q Consensus       292 ~~~IL~iDEiD~l~  305 (455)
                      ++.+++||.|..+.
T Consensus       170 ~~~~vVIDSIq~l~  183 (454)
T TIGR00416       170 NPQACVIDSIQTLY  183 (454)
T ss_pred             CCcEEEEecchhhc
Confidence            67899999998764

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)).

>PRK14527 adenylate kinase; Provisional

Probab=96.93  E-value=0.00071  Score=62.94  Aligned_cols=31  Identities=26%  Similarity=0.523  Sum_probs=26.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      +.-+++.||||+||||+++.+|+.++...+.
T Consensus         6 ~~~i~i~G~pGsGKsT~a~~La~~~~~~~is   36 (191)
T PRK14527          6 NKVVIFLGPPGAGKGTQAERLAQELGLKKLS   36 (191)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCCCCC
Confidence            4569999999999999999999999876543

>PRK04328 hypothetical protein; Provisional

Probab=96.93  E-value=0.0062  Score=59.32  Aligned_cols=50  Identities=28%  Similarity=0.240  Sum_probs=35.9

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHH-c--CCcEEEEeccccCChHHHHHHHH
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANY-L--KFDIYDMELASLRSNSDLRRLLV  288 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~-l--~~~v~~l~~~~~~~~~~l~~ll~  288 (455)
                      |++....+|++||||||||+|+..++.. +  |.+.+.+....  +...+.+.+.
T Consensus        19 Gip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee--~~~~i~~~~~   71 (249)
T PRK04328         19 GIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEE--HPVQVRRNMR   71 (249)
T ss_pred             CCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeC--CHHHHHHHHH
Confidence            6777888999999999999998876654 2  66777776554  4444554443

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.93  E-value=0.00061  Score=62.03  Aligned_cols=29  Identities=21%  Similarity=0.498  Sum_probs=26.0

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .+++.|.|||||||+++.++ .+|+.++.+
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~-~lg~~~i~l   30 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR-ELGYKVIEL   30 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH-HhCCceeeH
Confidence            47899999999999999999 999888754

>cd03286 ABC_MSH6_euk MutS6 homolog in eukaryotes

Probab=96.92  E-value=0.0035  Score=59.86  Aligned_cols=102  Identities=17%  Similarity=0.295  Sum_probs=58.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc-----CC---------cEEE-----Eecc-ccC-C-------hHHHHHHHHhhCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL-----KF---------DIYD-----MELA-SLR-S-------NSDLRRLLVSTGN  292 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l-----~~---------~v~~-----l~~~-~~~-~-------~~~l~~ll~~~~~  292 (455)
                      .+.++|+||.|.|||++.+.++...     |.         ++++     +... ++. +       -.++..++.....
T Consensus        30 ~~~~~itG~n~~gKs~~l~~i~~~~~la~~G~~vpa~~~~i~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il~~~~~  109 (218)
T cd03286          30 PRILVLTGPNMGGKSTLLRTVCLAVIMAQMGMDVPAKSMRLSLVDRIFTRIGARDDIMKGESTFMVELSETANILRHATP  109 (218)
T ss_pred             CcEEEEECCCCCchHHHHHHHHHHHHHHHcCCccCccccEeccccEEEEecCcccccccCcchHHHHHHHHHHHHHhCCC
Confidence            4578999999999999999987643     21         1111     1111 111 1       1445566777788


Q ss_pred             ceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCcc
Q 047029          293 RSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPA  358 (455)
Q Consensus       293 ~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~a  358 (455)
                      +++++|||+..-..           ..+.......++..+...     .+..+|++|+..+.....
T Consensus       110 ~sLvLlDE~~~Gt~-----------~~dg~~la~ail~~L~~~-----~~~~~i~~TH~~el~~~~  159 (218)
T cd03286         110 DSLVILDELGRGTS-----------THDGYAIAHAVLEYLVKK-----VKCLTLFSTHYHSLCDEF  159 (218)
T ss_pred             CeEEEEecccCCCC-----------chHHHHHHHHHHHHHHHh-----cCCcEEEEeccHHHHHHh
Confidence            99999999875211           111122222334443321     235678888876554433

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

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=96.92  E-value=0.0031  Score=67.30  Aligned_cols=86  Identities=23%  Similarity=0.356  Sum_probs=54.9

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCce-eEEECCCCCChHHHHHHHHHHcC---CcEEEEec----
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRG-YLLYGPPGTGKSSLIAAMANYLK---FDIYDMEL----  274 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg-~LL~GPpGTGKTsla~alA~~l~---~~v~~l~~----  274 (455)
                      +.+++++.+.++..+.+.+.+.    .           ++| +|+.||+|+||||++.++.++++   .+++.++-    
T Consensus       218 ~~~l~~Lg~~~~~~~~l~~~~~----~-----------~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~  282 (486)
T TIGR02533       218 RLDLETLGMSPELLSRFERLIR----R-----------PHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEY  282 (486)
T ss_pred             CCCHHHcCCCHHHHHHHHHHHh----c-----------CCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeee
Confidence            4578888888877766655443    1           456 68999999999999999888774   33444421    


Q ss_pred             --ccc-----CC--hHHHHHHHHhh--CCceEEEEecccc
Q 047029          275 --ASL-----RS--NSDLRRLLVST--GNRSILVIEDIDC  303 (455)
Q Consensus       275 --~~~-----~~--~~~l~~ll~~~--~~~~IL~iDEiD~  303 (455)
                        ..+     ..  ...+...+...  ..|.||++.||-.
T Consensus       283 ~~~~~~q~~v~~~~g~~f~~~lr~~LR~dPDvI~vGEiRd  322 (486)
T TIGR02533       283 QIEGIGQIQVNPKIGLTFAAGLRAILRQDPDIIMVGEIRD  322 (486)
T ss_pred             ecCCCceEEEccccCccHHHHHHHHHhcCCCEEEEeCCCC
Confidence              111     11  11223333222  4799999999964

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.92  E-value=0.0022  Score=60.25  Aligned_cols=24  Identities=46%  Similarity=0.801  Sum_probs=21.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      -+++.||+|+||||+++++++++.
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~   26 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYIN   26 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhh
Confidence            478999999999999999998884

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.

>PRK04182 cytidylate kinase; Provisional

Probab=96.92  E-value=0.00084  Score=61.15  Aligned_cols=29  Identities=28%  Similarity=0.494  Sum_probs=26.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .+.|.|+||||||++++++|+.+|+++++
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg~~~id   30 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLGLKHVS   30 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEec
Confidence            47899999999999999999999998875

>PF08740 BCS1_N: BCS1 N terminal; InterPro: IPR014851 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=96.92  E-value=0.038  Score=51.12  Aligned_cols=134  Identities=16%  Similarity=0.172  Sum_probs=88.5

Q ss_pred             cEEEEecCCCCCccHHHHHHHHHhhccCCc-ccccccccccC----------------------CCCceEEEccCCCEEE
Q 047029           59 LTLIIEQSEGFSVNEIYQAAELYLSTRITP-SIQQLRVSQAP----------------------REKSLSVTINEGQKVV  115 (455)
Q Consensus        59 ~~~~i~e~~~~~~n~~~~a~~~yl~~~~~~-~~~~l~~~~~~----------------------~~~~~~~~~~~~~~~~  115 (455)
                      .++.|++     .+++|+.+-.+|+..... ..+++.+....                      +.+.+.+.+..| ...
T Consensus        27 ~sv~I~~-----~D~~Y~~lm~Wls~q~~~~~~r~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~G-~h~  100 (187)
T PF08740_consen   27 SSVEIPS-----DDEAYDWLMRWLSSQPFSKRSRHLSATTRSNSSWDDDESDDEDSWDTNTSDDKKKPIRFTPSPG-THW  100 (187)
T ss_pred             EEEEECC-----CCHHHHHHHHHHhhCCcccccceeEEEeecccccccccccccchhccccccCCcCCeEEEeCCC-CEE
Confidence            4666665     457899999999877544 34555554421                      356789999999 566


Q ss_pred             EeeCCeEEEEEEEEeecCCCCCCCCCCcccccccceeEEEeeCcchhHHHHHhhhhHHHHHHHHHHhccceEEEeec--C
Q 047029          116 DTFEGMQLTWELVTTENQKTSLDYDSGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVIKLYSL--C  193 (455)
Q Consensus       116 d~f~g~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~vl~~yl~~v~~~~~~~~~~~~~~~~~~~--~  193 (455)
                      ..|+|   .|..+.+..+........     ..+.+.++|++-...++ +|.++|.+..+...  +..+....+|..  .
T Consensus       101 F~y~G---~~~~~~R~~~~~~~~~~~-----~~~~e~l~l~~lg~s~~-~l~~ll~ear~~~~--~~~~~~t~Iy~~~~~  169 (187)
T PF08740_consen  101 FWYKG---RWFWFSRQRESNSYNSWT-----GAPDETLTLSCLGRSPK-PLKDLLEEAREYYL--KKQKGKTTIYRADGS  169 (187)
T ss_pred             EEECC---EEEEEEEEeccccccccC-----CCCceEEEEEEecCCHH-HHHHHHHHHHHHHH--HhcCCcEEEEeCCCC
Confidence            67999   788888776443322111     13477899999888764 56666555444442  344444668877  2


Q ss_pred             c--ccccccCCCCCCccc
Q 047029          194 A--ADAINLDHPSTFDTL  209 (455)
Q Consensus       194 ~--w~~~~~~~p~tfd~l  209 (455)
                      .  |..+.-.++.++++|
T Consensus       170 ~~~W~~~~~r~~RplsTV  187 (187)
T PF08740_consen  170 EYRWRRVASRPKRPLSTV  187 (187)
T ss_pred             CCCCcCCCCcCCCCCCCC
Confidence            3  988777777888875

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) []. This domain is found at the N terminus of the mitochondrial BSC1 subfamily, belonging to the AAA ATPase family. At2g21640 and BCS1 are both highly stress responsive genes which encode mitochondrial proteins. The promoter of BCS1 was not responsive to H2O2 or rotenone, but highly responsive to salicylic acid (SA). The SA dependent pathway represented by BCS1 is one of at least three distinctive pathways to regulate mitochondrial stress response at a transcriptional level []. The BCS1 product is a mitochondrial protein required for the assembly of respiratory complex III []. BCS1, a component of the inner membrane of mitochondria, belongs to the group of proteins with internal, noncleavable import signals. It has a transmembrane domain (amino acid residues 51 to 68), a presequence type helix (residues 69 to 83), and an import auxiliary region (residues 84 to 126) [].

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.91  E-value=0.016  Score=58.26  Aligned_cols=99  Identities=11%  Similarity=0.038  Sum_probs=52.0

Q ss_pred             CceEEEEecccchhhhhhhcCCCCCC-CCcchhhHhhhhhhhhcccccCCCceEE-EEEcC---CCC--CCCccccCC-C
Q 047029          292 NRSILVIEDIDCSIELENRQCGGGYD-ENNSQVTLSGLLNFVDGLWSSCGDERII-VFTTN---YKE--RLDPALLRP-G  363 (455)
Q Consensus       292 ~~~IL~iDEiD~l~~~~~~~~~~~~~-~~~~~~~ls~LL~~ldg~~~~~~~~~iv-I~TTN---~~~--~Ld~allRp-G  363 (455)
                      -|.++.||++.+++....-....... ....-.....|++.+.|-.+-..+.+++ +.+|.   .+.  .++.++... +
T Consensus       156 ~PVL~avD~~n~l~~~S~Y~~~~~~~I~~~~L~l~~~f~~~~s~~~~~~nG~~v~~l~~t~~~~~~~~~~l~~~L~~~~~  235 (309)
T PF10236_consen  156 PPVLVAVDGFNALFGPSAYRDPDFKPIHPHDLTLVRLFLDLLSGKRDFKNGAVVTALAATSVSNAPKSPTLPVALGGKEG  235 (309)
T ss_pred             CceEEEehhhHHhhCCccccCCCCccccHHHhhHHHHHHHHhcCccccCCCeEEEEEeccccccccCCccchhhhccccC
Confidence            36799999999997632212111111 1111223344555544433322222321 44443   222  456566531 1


Q ss_pred             c-----ee-------------EEEEeCCCCHHHHHHHHHHhhccc
Q 047029          364 R-----MD-------------MHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       364 R-----~d-------------~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      +     |.             ..|+++..+.++.+.++..|....
T Consensus       236 ~~~~dPy~~~d~~~~~~l~~~~~i~v~~~s~~E~~~ll~yy~~~~  280 (309)
T PF10236_consen  236 FPHLDPYVKRDPRVAESLKGVKPIEVPRLSKEEARSLLEYYADSG  280 (309)
T ss_pred             CCCCCCcccccHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHCC
Confidence            1     10             168899999999999999887643

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).

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.91  E-value=0.0035  Score=57.24  Aligned_cols=27  Identities=26%  Similarity=0.439  Sum_probs=23.7

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ++..-+.|.||+|+|||+|++++++.+
T Consensus        26 ~~G~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          26 KPGEKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            345569999999999999999999987

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.90  E-value=0.0047  Score=65.93  Aligned_cols=65  Identities=23%  Similarity=0.291  Sum_probs=44.7

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEecccc----------------------CChHHHHHHHHhhCC
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELASL----------------------RSNSDLRRLLVSTGN  292 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~~~----------------------~~~~~l~~ll~~~~~  292 (455)
                      +...+.|.||+|+||||++..||..+     +..+..++....                      .....+...+.....
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~~  428 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLRD  428 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhcc
Confidence            35678999999999999999999764     233433332110                      123456666766677


Q ss_pred             ceEEEEecccch
Q 047029          293 RSILVIEDIDCS  304 (455)
Q Consensus       293 ~~IL~iDEiD~l  304 (455)
                      ..+|+||.....
T Consensus       429 ~DLVLIDTaG~s  440 (559)
T PRK12727        429 YKLVLIDTAGMG  440 (559)
T ss_pred             CCEEEecCCCcc
Confidence            889999998753

>TIGR01069 mutS2 MutS2 family protein

Probab=96.90  E-value=0.0034  Score=70.56  Aligned_cols=23  Identities=22%  Similarity=0.356  Sum_probs=21.4

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      +.++|.||.|+|||++.+.++..
T Consensus       323 ~~liItGpNg~GKSTlLK~i~~~  345 (771)
T TIGR01069       323 RVLAITGPNTGGKTVTLKTLGLL  345 (771)
T ss_pred             eEEEEECCCCCCchHHHHHHHHH
Confidence            67999999999999999999876

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=96.90  E-value=0.0064  Score=68.05  Aligned_cols=64  Identities=20%  Similarity=0.296  Sum_probs=40.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---C--CcEEEEecccc----------CChHHHHHHHHhh------------CCc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---K--FDIYDMELASL----------RSNSDLRRLLVST------------GNR  293 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~--~~v~~l~~~~~----------~~~~~l~~ll~~~------------~~~  293 (455)
                      .+-++|.|+||||||++++++...+   +  ..++-+..+.-          .....+.++|...            ...
T Consensus       338 ~~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g~~a~Tih~lL~~~~~~~~~~~~~~~~~~  417 (720)
T TIGR01448       338 HKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGLTASTIHRLLGYGPDTFRHNHLEDPIDC  417 (720)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcCCccccHHHHhhccCCccchhhhhccccC
Confidence            3478999999999999999997766   3  44544433221          0123344444211            134


Q ss_pred             eEEEEecccch
Q 047029          294 SILVIEDIDCS  304 (455)
Q Consensus       294 ~IL~iDEiD~l  304 (455)
                      .+|++||+..+
T Consensus       418 ~llIvDEaSMv  428 (720)
T TIGR01448       418 DLLIVDESSMM  428 (720)
T ss_pred             CEEEEeccccC
Confidence            79999999865

This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.89  E-value=0.0097  Score=53.98  Aligned_cols=107  Identities=11%  Similarity=0.231  Sum_probs=62.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc-----------------------------CC-hH---HHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL-----------------------------RS-NS---DLRRL  286 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~-----------------------------~~-~~---~l~~l  286 (455)
                      -+.+|+++|+|||++|-++|-..   |..+..+..-.-                             .. ..   ..++.
T Consensus         4 ~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a~~~   83 (159)
T cd00561           4 LIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAAAEG   83 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHHHHH
Confidence            36789999999999999998765   555554322110                             00 01   11111


Q ss_pred             HH------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCcccc
Q 047029          287 LV------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALL  360 (455)
Q Consensus       287 l~------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~all  360 (455)
                      +.      ......+|+||||-....             ..-.....++..++..    +++.=+|+|...   .++.|+
T Consensus        84 ~~~a~~~~~~~~~dLlVLDEi~~a~~-------------~gli~~~~v~~ll~~r----p~~~evIlTGr~---~p~~l~  143 (159)
T cd00561          84 WAFAKEAIASGEYDLVILDEINYALG-------------YGLLDVEEVVDLLKAK----PEDLELVLTGRN---APKELI  143 (159)
T ss_pred             HHHHHHHHhcCCCCEEEEechHhHhh-------------CCCCCHHHHHHHHHcC----CCCCEEEEECCC---CCHHHH
Confidence            21      123568999999987754             1123345566666543    345668888876   355666


Q ss_pred             CCCceeEEEEe
Q 047029          361 RPGRMDMHIHM  371 (455)
Q Consensus       361 RpGR~d~~I~~  371 (455)
                      -  +.|.+=+|
T Consensus       144 e--~AD~VTEm  152 (159)
T cd00561         144 E--AADLVTEM  152 (159)
T ss_pred             H--hCceeeec
Confidence            5  55655444

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.88  E-value=0.014  Score=60.79  Aligned_cols=35  Identities=23%  Similarity=0.356  Sum_probs=26.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc----CCcEEEEecc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMELA  275 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~~  275 (455)
                      +.-++|.||+|+||||++..+|..+    |..+..+++.
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~D  261 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTD  261 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEeccc
Confidence            3458899999999999999999754    4445444443

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.87  E-value=0.0015  Score=61.10  Aligned_cols=24  Identities=33%  Similarity=0.592  Sum_probs=22.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      -++|.|+||+|||++++-+|+.|.
T Consensus         3 LiIlTGyPgsGKTtfakeLak~L~   26 (261)
T COG4088           3 LIILTGYPGSGKTTFAKELAKELR   26 (261)
T ss_pred             eEEEecCCCCCchHHHHHHHHHHH
Confidence            378999999999999999999993

>PLN02199 shikimate kinase

Probab=96.87  E-value=0.0019  Score=64.06  Aligned_cols=34  Identities=26%  Similarity=0.486  Sum_probs=31.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      .++++|.|++|+|||++++.+|+.+|+++++.|.
T Consensus       102 ~~~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDtD~  135 (303)
T PLN02199        102 GRSMYLVGMMGSGKTTVGKLMSKVLGYTFFDCDT  135 (303)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEehHH
Confidence            5689999999999999999999999999998763

>PRK01184 hypothetical protein; Provisional

Probab=96.86  E-value=0.00099  Score=61.40  Aligned_cols=29  Identities=24%  Similarity=0.336  Sum_probs=24.9

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      -++|.||||+||||+++ +++.+|++++..
T Consensus         3 ~i~l~G~~GsGKsT~a~-~~~~~g~~~i~~   31 (184)
T PRK01184          3 IIGVVGMPGSGKGEFSK-IAREMGIPVVVM   31 (184)
T ss_pred             EEEEECCCCCCHHHHHH-HHHHcCCcEEEh
Confidence            57899999999999887 889999887654

>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=96.86  E-value=0.0043  Score=58.25  Aligned_cols=25  Identities=40%  Similarity=0.604  Sum_probs=22.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |+-++|.||+|+||||.+.-+|.++
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            4678999999999999999999887

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 ....

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.85  E-value=0.0055  Score=56.21  Aligned_cols=27  Identities=30%  Similarity=0.437  Sum_probs=23.6

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +....+.|.||+|+|||||++++++.+
T Consensus        26 ~~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          26 KQGEKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            335569999999999999999999976

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.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=96.85  E-value=0.0011  Score=60.01  Aligned_cols=29  Identities=28%  Similarity=0.620  Sum_probs=26.5

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +.++|++|+|||++++.+|+.++++++..
T Consensus         3 I~i~G~~GSGKstia~~la~~lg~~~~~~   31 (171)
T TIGR02173         3 ITISGPPGSGKTTVAKILAEKLSLKLISA   31 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCceecH
Confidence            68999999999999999999999887654

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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.85  E-value=0.0012  Score=61.17  Aligned_cols=28  Identities=39%  Similarity=0.666  Sum_probs=24.0

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      .+++.||||+||||+|+.||+.++++-+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i~hl   29 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGLPHL   29 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            4789999999999999999999655443

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=96.84  E-value=0.0039  Score=62.96  Aligned_cols=62  Identities=21%  Similarity=0.415  Sum_probs=40.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEecc-cc------------CChHHHHHHHHhh--CCceEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELA-SL------------RSNSDLRRLLVST--GNRSILVIED  300 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~-~~------------~~~~~l~~ll~~~--~~~~IL~iDE  300 (455)
                      ++++++.||+|+||||++++++.++     ...++.++-. ++            ...-.+.+++...  .+|..|++.|
T Consensus       148 ~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~El~~~~~~~v~~~~~~~~~~~~ll~~aLR~~PD~IivGE  227 (319)
T PRK13894        148 HRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEIQCAAENYVQYHTSIDVNMTALLKTTLRMRPDRILVGE  227 (319)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCCccccCCCCEEEEecCCCCCHHHHHHHHhcCCCCEEEEec
Confidence            5789999999999999999999874     1223322110 11            1122344554433  3689999999


Q ss_pred             cc
Q 047029          301 ID  302 (455)
Q Consensus       301 iD  302 (455)
                      +-
T Consensus       228 iR  229 (319)
T PRK13894        228 VR  229 (319)
T ss_pred             cC
Confidence            86

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=96.84  E-value=0.00074  Score=60.26  Aligned_cols=26  Identities=27%  Similarity=0.524  Sum_probs=22.9

Q ss_pred             EECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          246 LYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       246 L~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      |.||||+|||++++.||..+|+..+.
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~~~is   26 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGLVHIS   26 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTSEEEE
T ss_pred             CcCCCCCChHHHHHHHHHhcCcceec
Confidence            57999999999999999999876543

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>PRK06696 uridine kinase; Validated

Probab=96.83  E-value=0.0042  Score=59.32  Aligned_cols=39  Identities=10%  Similarity=0.198  Sum_probs=31.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRS  279 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~  279 (455)
                      +.-|.+.|+||+||||+|+.|+..+   |..++.+.+.++..
T Consensus        22 ~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~~   63 (223)
T PRK06696         22 PLRVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDFHN   63 (223)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeccccccC
Confidence            5578899999999999999999999   66777666665543

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.83  E-value=0.0044  Score=57.19  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=20.6

Q ss_pred             CCceeEEECCCCCChHHHHHHHHH
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      +..-+.|.||.|+|||||.++++.
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            345589999999999999999964

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PTZ00202 tuzin; Provisional

Probab=96.82  E-value=0.011  Score=61.66  Aligned_cols=75  Identities=19%  Similarity=0.210  Sum_probs=51.0

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHH
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSD  282 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~  282 (455)
                      |..-.+++|-+....++...+..          .....++-+.|.||+|||||++++.++..++...+.++..  ....-
T Consensus       258 Pa~~~~FVGReaEla~Lr~VL~~----------~d~~~privvLtG~~G~GKTTLlR~~~~~l~~~qL~vNpr--g~eEl  325 (550)
T PTZ00202        258 PAVIRQFVSREAEESWVRQVLRR----------LDTAHPRIVVFTGFRGCGKSSLCRSAVRKEGMPAVFVDVR--GTEDT  325 (550)
T ss_pred             CCCccCCCCcHHHHHHHHHHHhc----------cCCCCceEEEEECCCCCCHHHHHHHHHhcCCceEEEECCC--CHHHH
Confidence            44456677776666666555431          2233356789999999999999999999999887777776  23344


Q ss_pred             HHHHHHh
Q 047029          283 LRRLLVS  289 (455)
Q Consensus       283 l~~ll~~  289 (455)
                      ++.++..
T Consensus       326 Lr~LL~A  332 (550)
T PTZ00202        326 LRSVVKA  332 (550)
T ss_pred             HHHHHHH
Confidence            4444443

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.82  E-value=0.005  Score=62.74  Aligned_cols=26  Identities=19%  Similarity=0.217  Sum_probs=22.9

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHH
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMA  262 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA  262 (455)
                      |++...-+.|+||||||||.|+..+|
T Consensus       122 Gi~~G~ItEI~G~~GsGKTql~lqla  147 (344)
T PLN03187        122 GIETRCITEAFGEFRSGKTQLAHTLC  147 (344)
T ss_pred             CCCCCeEEEEecCCCCChhHHHHHHH
Confidence            66767778999999999999999886

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.82  E-value=0.00081  Score=60.78  Aligned_cols=26  Identities=35%  Similarity=0.630  Sum_probs=20.9

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      |.|.|+||||||||+++|+.. |++++
T Consensus         2 I~i~G~~stGKTTL~~~L~~~-g~~~v   27 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR-GYPVV   27 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH-T-EEE
T ss_pred             EEEECCCCCCHHHHHHHHHHc-CCeEE
Confidence            689999999999999999999 77765

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

Probab=96.82  E-value=0.0041  Score=60.79  Aligned_cols=50  Identities=22%  Similarity=0.202  Sum_probs=38.7

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHHHHHHH
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDLRRLLV  288 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l~~ll~  288 (455)
                      |++..+.+|++|+||||||+++..++...   |.+++.+....  +...+.+.+.
T Consensus        19 G~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e--~~~~l~~~~~   71 (260)
T COG0467          19 GLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEE--SPEELLENAR   71 (260)
T ss_pred             CCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecC--CHHHHHHHHH
Confidence            67778889999999999999999888765   67787777654  4455555553

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=96.81  E-value=0.0045  Score=63.77  Aligned_cols=62  Identities=19%  Similarity=0.176  Sum_probs=39.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC-----CcEEEEecc-c----------------cC-ChHHHHHHHHhh--CCceEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK-----FDIYDMELA-S----------------LR-SNSDLRRLLVST--GNRSIL  296 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~-----~~v~~l~~~-~----------------~~-~~~~l~~ll~~~--~~~~IL  296 (455)
                      ..+|+.||+|+||||+++++.+++.     .+++.++-. +                +. ....+...+...  ..|.+|
T Consensus       150 GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~~~~~~~~~~~q~evg~~~~~~~~~l~~aLR~~PD~I  229 (372)
T TIGR02525       150 GLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYILGSPDDLLPPAQSQIGRDVDSFANGIRLALRRAPKII  229 (372)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhccCCCceeecccccccCCCccCHHHHHHHhhccCCCEE
Confidence            3689999999999999999998872     345554311 0                00 011233333322  379999


Q ss_pred             EEecccc
Q 047029          297 VIEDIDC  303 (455)
Q Consensus       297 ~iDEiD~  303 (455)
                      ++.|+-.
T Consensus       230 ~vGEiRd  236 (372)
T TIGR02525       230 GVGEIRD  236 (372)
T ss_pred             eeCCCCC
Confidence            9999963

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>PTZ00035 Rad51 protein; Provisional

Probab=96.80  E-value=0.0057  Score=62.27  Aligned_cols=27  Identities=26%  Similarity=0.233  Sum_probs=23.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHH
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      |++...-+.++||||||||+++..+|.
T Consensus       114 Gi~~G~iteI~G~~GsGKT~l~~~l~~  140 (337)
T PTZ00035        114 GIETGSITELFGEFRTGKTQLCHTLCV  140 (337)
T ss_pred             CCCCCeEEEEECCCCCchhHHHHHHHH
Confidence            667677799999999999999998874

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.79  E-value=0.0039  Score=58.78  Aligned_cols=33  Identities=33%  Similarity=0.313  Sum_probs=26.0

Q ss_pred             HHhhh--cCCCCceeEEECCCCCChHHHHHHHHHH
Q 047029          232 FYSRV--GKAWKRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       232 ~~~~~--g~~~~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .-+++  |+|.+.=+++.|+.|||||.|.+.+|--
T Consensus        17 lDkrLGGGiP~GsL~lIEGd~~tGKSvLsqr~~YG   51 (235)
T COG2874          17 LDKRLGGGIPVGSLILIEGDNGTGKSVLSQRFAYG   51 (235)
T ss_pred             HHhhccCCCccCeEEEEECCCCccHHHHHHHHHHH
Confidence            33445  4666777999999999999999999853

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.78  E-value=0.0013  Score=65.55  Aligned_cols=32  Identities=28%  Similarity=0.239  Sum_probs=26.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc-CCcEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL-KFDIYDM  272 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l-~~~v~~l  272 (455)
                      +.-+++.|||||||||+++.+++.+ +..+++.
T Consensus         2 ~~liil~G~pGSGKSTla~~L~~~~~~~~~l~~   34 (300)
T PHA02530          2 MKIILTVGVPGSGKSTWAREFAAKNPKAVNVNR   34 (300)
T ss_pred             cEEEEEEcCCCCCHHHHHHHHHHHCCCCEEEec
Confidence            3468999999999999999999999 6555543

>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid []

Probab=96.77  E-value=0.0013  Score=61.94  Aligned_cols=150  Identities=17%  Similarity=0.115  Sum_probs=64.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHH---HHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDL---RRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDEN  319 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l---~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~  319 (455)
                      -++++||+|||||.++-++|+.+|.+++..|--....+-.+   +..-.+...-.=+++||-.-.-           +.-
T Consensus         3 v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~Driq~y~~l~v~Sgrp~~~el~~~~RiyL~~r~l~~-----------G~i   71 (233)
T PF01745_consen    3 VYLIVGPTGTGKTALAIALAQKTGAPVISLDRIQCYPELSVGSGRPTPSELKGTRRIYLDDRPLSD-----------GII   71 (233)
T ss_dssp             EEEEE-STTSSHHHHHHHHHHHH--EEEEE-SGGG-GGGTTTTT---SGGGTT-EEEES----GGG------------S-
T ss_pred             EEEEECCCCCChhHHHHHHHHHhCCCEEEecceecccccccccCCCCHHHHcccceeeeccccccC-----------CCc
Confidence            47999999999999999999999999999886554211000   1111111111126777543211           112


Q ss_pred             cchhhHhhhhhhhhcccccCCCceEEEEEcCCC--CCCCcccc-CCCceeEEEEeCCCCHHHHHHHHH----Hhhcc--c
Q 047029          320 NSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK--ERLDPALL-RPGRMDMHIHMSYLTPGGFKILAF----NYLKI--K  390 (455)
Q Consensus       320 ~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~--~~Ld~all-RpGR~d~~I~~~~p~~~~~~~L~~----~~l~~--~  390 (455)
                      ........|+..++....  .+.+|+=+-+...  ...-.... -+.+. ..+.++.|+.+.+..-++    .+|..  .
T Consensus        72 ~a~ea~~~Li~~v~~~~~--~~~~IlEGGSISLl~~m~~~~~w~~~f~w-~i~rl~l~d~~~f~~ra~~Rv~~ML~p~~~  148 (233)
T PF01745_consen   72 NAEEAHERLISEVNSYSA--HGGLILEGGSISLLNCMAQDPYWSLDFRW-HIRRLRLPDEEVFMARAKRRVRQMLRPDSS  148 (233)
T ss_dssp             -HHHHHHHHHHHHHTTTT--SSEEEEEE--HHHHHHHHH-TTTSSSSEE-EEEE-----HHHHHHHHHHHHHHHHS--SS
T ss_pred             CHHHHHHHHHHHHHhccc--cCceEEeCchHHHHHHHHhcccccCCCeE-EEEEEECCChHHHHHHHHHHHHHhcCCCCC
Confidence            233455667777777654  2223332332210  00001111 22222 234567888887654433    33332  2


Q ss_pred             CCCchHHHHHhhcccc
Q 047029          391 SHSMFDEIEELIKEVE  406 (455)
Q Consensus       391 ~~~l~~ei~~ll~~~~  406 (455)
                      ...+.+|+.++-..-.
T Consensus       149 ~~Sll~EL~~lW~~p~  164 (233)
T PF01745_consen  149 GPSLLEELVALWNDPA  164 (233)
T ss_dssp             S--HHHHHHHHHTSTT
T ss_pred             CCcHHHHHHHHHhCcc
Confidence            3345667776665433

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

>PRK14526 adenylate kinase; Provisional

Probab=96.77  E-value=0.0013  Score=62.54  Aligned_cols=29  Identities=28%  Similarity=0.630  Sum_probs=25.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .++|.||||+||||+++.+|+.+++..+.
T Consensus         2 ~i~l~G~pGsGKsT~a~~La~~~~~~~is   30 (211)
T PRK14526          2 KLVFLGPPGSGKGTIAKILSNELNYYHIS   30 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceee
Confidence            37899999999999999999999876654

>PF00488 MutS_V: MutS domain V C-terminus

Probab=96.77  E-value=0.0074  Score=58.33  Aligned_cols=97  Identities=15%  Similarity=0.310  Sum_probs=54.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc-----CCc---------EE-----EEecc-ccC-C-------hHHHHHHHHhhCCc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL-----KFD---------IY-----DMELA-SLR-S-------NSDLRRLLVSTGNR  293 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l-----~~~---------v~-----~l~~~-~~~-~-------~~~l~~ll~~~~~~  293 (455)
                      +.++|+||..+|||++++.+|-..     |..         ++     .+... ++. +       -.++..++....++
T Consensus        44 ~~~iiTGpN~sGKSt~lk~i~~~~ilaq~G~~VPA~~~~i~~~d~I~t~~~~~d~~~~~~S~F~~E~~~~~~il~~~~~~  123 (235)
T PF00488_consen   44 RIIIITGPNMSGKSTFLKQIGLIVILAQIGCFVPAESAEIPIFDRIFTRIGDDDSIESGLSTFMAEMKRLSSILRNATEK  123 (235)
T ss_dssp             SEEEEESSTTSSHHHHHHHHHHHHHHHTTT--BSSSEEEEE--SEEEEEES---SSTTSSSHHHHHHHHHHHHHHH--TT
T ss_pred             eEEEEeCCCccchhhHHHHHHHHhhhhhcCceeeecccccccccEEEeecccccccccccccHHHhHHHHHhhhhhcccc
Confidence            679999999999999999998654     321         11     11111 111 1       14566677777789


Q ss_pred             eEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC
Q 047029          294 SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER  354 (455)
Q Consensus       294 ~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~  354 (455)
                      ++++|||+..--.           ..+.......+++.+...     .+..+++||+..+.
T Consensus       124 sLvliDE~g~gT~-----------~~eg~ai~~aile~l~~~-----~~~~~i~~TH~~~l  168 (235)
T PF00488_consen  124 SLVLIDELGRGTN-----------PEEGIAIAIAILEYLLEK-----SGCFVIIATHFHEL  168 (235)
T ss_dssp             EEEEEESTTTTSS-----------HHHHHHHHHHHHHHHHHT-----TT-EEEEEES-GGG
T ss_pred             eeeecccccCCCC-----------hhHHHHHHHHHHHHHHHh-----ccccEEEEeccchh
Confidence            9999999975211           112222333445544421     12467889987754

; InterPro: IPR000432 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the C-terminal domain found in proteins in the MutS family of DNA mismatch repair proteins. The C-terminal region of MutS is comprised of the ATPase domain and the HTH (helix-turn-helix) domain, the latter being involved in dimer contacts. Yeast MSH3 [], bacterial proteins involved in DNA mismatch repair, and the predicted protein product of the Rep-3 gene of mouse share extensive sequence similarity. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. ; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1FW6_A 1EWQ_A 1EWR_B 1NNE_B 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B ....

>PRK10436 hypothetical protein; Provisional

Probab=96.76  E-value=0.0057  Score=64.80  Aligned_cols=85  Identities=22%  Similarity=0.429  Sum_probs=54.8

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCce-eEEECCCCCChHHHHHHHHHHcC---CcEEEEec-----
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRG-YLLYGPPGTGKSSLIAAMANYLK---FDIYDMEL-----  274 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg-~LL~GPpGTGKTsla~alA~~l~---~~v~~l~~-----  274 (455)
                      .+++++.+.+...+.+.+.+.    .           +.| +|+.||+|+||||++.++.++++   .+++.++-     
T Consensus       195 ~~L~~LG~~~~~~~~l~~~~~----~-----------~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDPvE~~  259 (462)
T PRK10436        195 LDLETLGMTPAQLAQFRQALQ----Q-----------PQGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEIP  259 (462)
T ss_pred             CCHHHcCcCHHHHHHHHHHHH----h-----------cCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCCcccc
Confidence            478899888877766655443    1           344 78899999999999988888773   33444321     


Q ss_pred             -cc-----cC--ChHHHHHHHHhh--CCceEEEEecccc
Q 047029          275 -AS-----LR--SNSDLRRLLVST--GNRSILVIEDIDC  303 (455)
Q Consensus       275 -~~-----~~--~~~~l~~ll~~~--~~~~IL~iDEiD~  303 (455)
                       ..     +.  ....+...+...  ..|.||++.||-.
T Consensus       260 l~gi~Q~~v~~~~g~~f~~~lr~~LR~dPDvI~vGEIRD  298 (462)
T PRK10436        260 LAGINQTQIHPKAGLTFQRVLRALLRQDPDVIMVGEIRD  298 (462)
T ss_pred             CCCcceEeeCCccCcCHHHHHHHHhcCCCCEEEECCCCC
Confidence             11     11  112344444333  3699999999963

>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=96.75  E-value=0.0027  Score=62.63  Aligned_cols=62  Identities=21%  Similarity=0.367  Sum_probs=34.9

Q ss_pred             eEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc----------CChHHHHHHHH-----hhCCceEEEEecccchh
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL----------RSNSDLRRLLV-----STGNRSILVIEDIDCSI  305 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~----------~~~~~l~~ll~-----~~~~~~IL~iDEiD~l~  305 (455)
                      ++|+|.||+|||++++.|+..+   +..+..++-..+          ..+...+..+.     ......|+++|+...+-
T Consensus         4 iil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~ls~~~iVI~Dd~nYiK   83 (270)
T PF08433_consen    4 IILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERALSKDTIVILDDNNYIK   83 (270)
T ss_dssp             EEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHHTT-SEEEE-S---SH
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhhccCeEEEEeCCchHH
Confidence            7899999999999999999986   566666553322          12233443332     22456899999988653

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.74  E-value=0.0072  Score=64.59  Aligned_cols=51  Identities=22%  Similarity=0.186  Sum_probs=38.0

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHH----cCCcEEEEeccccCChHHHHHHHHh
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANY----LKFDIYDMELASLRSNSDLRRLLVS  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~----l~~~v~~l~~~~~~~~~~l~~ll~~  289 (455)
                      |++..+.+|+.||||||||+++..++..    .|.+.+++.+.  ++..++.+....
T Consensus        17 Glp~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e--E~~~~l~~~~~~   71 (484)
T TIGR02655        17 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE--ESPQDIIKNARS   71 (484)
T ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe--cCHHHHHHHHHH
Confidence            7888889999999999999999988543    26787777765  355555555433

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.72  E-value=0.0034  Score=57.95  Aligned_cols=29  Identities=31%  Similarity=0.536  Sum_probs=25.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDI  269 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v  269 (455)
                      +|-++|.||+|+|||+|++.|.....-.+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~   30 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKF   30 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTTE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhccccc
Confidence            56799999999999999999999986544

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 ....

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.72  E-value=0.0019  Score=57.85  Aligned_cols=30  Identities=30%  Similarity=0.500  Sum_probs=25.6

Q ss_pred             eEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      +++.|+||+|||++++.++..+   +...+.++
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~   34 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLD   34 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEc
Confidence            6899999999999999999998   66665554

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.72  E-value=0.0015  Score=60.55  Aligned_cols=30  Identities=33%  Similarity=0.511  Sum_probs=25.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      ..+.|.||+|+||||+++.|+..++.+++.
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~~~~~~~   32 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQREQTQLLV   32 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccCCCeEEE
Confidence            468899999999999999999998766544

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=96.71  E-value=0.0057  Score=55.91  Aligned_cols=25  Identities=40%  Similarity=0.640  Sum_probs=22.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||+|+|||+|++.+|+.+
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4468999999999999999999976

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.70  E-value=0.0062  Score=60.17  Aligned_cols=52  Identities=35%  Similarity=0.695  Sum_probs=37.8

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCce-eEEECCCCCChHHHHHHHHHHcC----CcEEEE
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRG-YLLYGPPGTGKSSLIAAMANYLK----FDIYDM  272 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg-~LL~GPpGTGKTsla~alA~~l~----~~v~~l  272 (455)
                      ...+|+.+..++-+.+ +.+                  .++| +|..||.|+||||..+||-+++|    .+++.+
T Consensus       104 ~i~~~e~LglP~i~~~-~~~------------------~~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTI  160 (353)
T COG2805         104 KIPTLEELGLPPIVRE-LAE------------------SPRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTI  160 (353)
T ss_pred             cCCCHHHcCCCHHHHH-HHh------------------CCCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEe
Confidence            3457888888765544 211                  1566 67889999999999999999995    345544

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=96.66  E-value=0.0097  Score=58.24  Aligned_cols=115  Identities=21%  Similarity=0.223  Sum_probs=64.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---------CCcEEEEeccccCChHHHHH----------------------
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---------KFDIYDMELASLRSNSDLRR----------------------  285 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---------~~~v~~l~~~~~~~~~~l~~----------------------  285 (455)
                      |++...-+=|+||||||||.|+-.+|-..         +..++++|...--+...+.+                      
T Consensus        34 Gi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~i~~~~~~~~~~~l~~I~v~~~~  113 (256)
T PF08423_consen   34 GIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQIAERFGLDPEEILDNIFVIRVF  113 (256)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHHHHHHTTS-HHHHHHTEEEEE-S
T ss_pred             CCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHHHhhccccccchhhhceeeeecC
Confidence            55555557799999999999998887543         34577777654322222222                      


Q ss_pred             -------HHHh------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          286 -------LLVS------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       286 -------ll~~------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                             ++..      ..+-.+|+||-|-.++...-  .+. .+.......+..+++.+-.+...  .++.||.|..-.
T Consensus       114 ~~~~l~~~L~~l~~~l~~~~ikLIVIDSIaalfr~e~--~~~-~~~~~R~~~L~~~~~~L~~lA~~--~~iaVvvTNqv~  188 (256)
T PF08423_consen  114 DLEELLELLEQLPKLLSESKIKLIVIDSIAALFRSEF--SGR-GDLAERQRMLARLARILKRLARK--YNIAVVVTNQVT  188 (256)
T ss_dssp             SHHHHHHHHHHHHHHHHHSCEEEEEEETSSHHHHHHS--GST-TTHHHHHHHHHHHHHHHHHHHHH--TT-EEEEEEEEC
T ss_pred             CHHHHHHHHHHHHhhccccceEEEEecchHHHHHHHH--ccc-hhhHHHHHHHHHHHHHHHHHHHh--CCceEEeeceee
Confidence                   2211      12457999999999875221  110 11123345666777777766554  334555443333


Q ss_pred             CCCC
Q 047029          353 ERLD  356 (455)
Q Consensus       353 ~~Ld  356 (455)
                      ...|
T Consensus       189 ~~~~  192 (256)
T PF08423_consen  189 TKID  192 (256)
T ss_dssp             SSTT
T ss_pred             ecCC
Confidence            3333

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 ....

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.66  E-value=0.0084  Score=66.96  Aligned_cols=70  Identities=16%  Similarity=0.216  Sum_probs=44.0

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHH---cCCcEEEEecccc---------------------CChHHHHHHHH---h
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANY---LKFDIYDMELASL---------------------RSNSDLRRLLV---S  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~---l~~~v~~l~~~~~---------------------~~~~~l~~ll~---~  289 (455)
                      |++..+-++++||||||||+|+..++..   .|..+..++...-                     .....+..++.   .
T Consensus        56 Gip~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~~A~~lGvDl~~llv~~~~~~E~~l~~i~~lv~  135 (790)
T PRK09519         56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIR  135 (790)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHHHHHHcCCChhHeEEecCCCHHHHHHHHHHHhh
Confidence            6777778999999999999999654432   2445555443221                     11122222222   2


Q ss_pred             hCCceEEEEecccchhh
Q 047029          290 TGNRSILVIEDIDCSIE  306 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~~  306 (455)
                      ...+.+|+||-|..+..
T Consensus       136 ~~~~~LVVIDSI~aL~~  152 (790)
T PRK09519        136 SGALDIVVIDSVAALVP  152 (790)
T ss_pred             cCCCeEEEEcchhhhcc
Confidence            23678999999998864

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.66  E-value=0.011  Score=60.90  Aligned_cols=37  Identities=19%  Similarity=0.194  Sum_probs=28.7

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELAS  276 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~  276 (455)
                      .++.++|.||+|+||||++..+|..+   +..+..+++..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDt  244 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDT  244 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCc
Confidence            35678999999999999999999877   45555555443

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.66  E-value=0.0059  Score=61.37  Aligned_cols=28  Identities=18%  Similarity=0.524  Sum_probs=24.8

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcC
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..+.++++.||+|+||||+++++++.+.
T Consensus       142 ~~~~~ili~G~tGsGKTTll~al~~~~~  169 (308)
T TIGR02788       142 ASRKNIIISGGTGSGKTTFLKSLVDEIP  169 (308)
T ss_pred             hCCCEEEEECCCCCCHHHHHHHHHccCC
Confidence            3467999999999999999999998873

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=96.64  E-value=0.0055  Score=55.48  Aligned_cols=25  Identities=32%  Similarity=0.541  Sum_probs=21.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ++..++.||.|+|||+++++++-.+
T Consensus        21 ~~~~~i~G~NgsGKS~~l~~i~~~~   45 (162)
T cd03227          21 GSLTIITGPNGSGKSTILDAIGLAL   45 (162)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3578999999999999999986544

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>PLN02674 adenylate kinase

Probab=96.63  E-value=0.0021  Score=62.41  Aligned_cols=31  Identities=23%  Similarity=0.443  Sum_probs=27.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      +..++|.||||+||+|+++.||..+++..+.
T Consensus        31 ~~~i~l~G~PGsGKgT~a~~La~~~~~~his   61 (244)
T PLN02674         31 DKRLILIGPPGSGKGTQSPIIKDEYCLCHLA   61 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHcCCcEEc
Confidence            4569999999999999999999999876553

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.63  E-value=0.0079  Score=57.39  Aligned_cols=38  Identities=21%  Similarity=0.108  Sum_probs=29.7

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      |++....++++||||||||+++..++...   +..++.+..
T Consensus        16 Gi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~   56 (229)
T TIGR03881        16 GIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTT   56 (229)
T ss_pred             CCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEc
Confidence            67777889999999999999999877543   555666654

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.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.63  E-value=0.0051  Score=62.78  Aligned_cols=62  Identities=23%  Similarity=0.435  Sum_probs=39.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC----CcEEEEecc-c--------------cC-ChHHHHHHHHhh--CCceEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK----FDIYDMELA-S--------------LR-SNSDLRRLLVST--GNRSILVI  298 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~----~~v~~l~~~-~--------------~~-~~~~l~~ll~~~--~~~~IL~i  298 (455)
                      ...+++.||+|+||||+++++.+++.    ..++.+.-. +              +. ....+.+.+...  ..|.+|++
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~~~~~~~i~q~evg~~~~~~~~~l~~~lr~~pd~i~v  201 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVHRNKRSLINQREVGLDTLSFANALRAALREDPDVILI  201 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhccCccceEEccccCCCCcCHHHHHHHhhccCCCEEEE
Confidence            34689999999999999999998774    233333210 0              00 111234444332  47899999


Q ss_pred             eccc
Q 047029          299 EDID  302 (455)
Q Consensus       299 DEiD  302 (455)
                      ||+.
T Consensus       202 gEir  205 (343)
T TIGR01420       202 GEMR  205 (343)
T ss_pred             eCCC
Confidence            9995

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

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

Probab=96.63  E-value=0.0032  Score=57.67  Aligned_cols=37  Identities=22%  Similarity=0.402  Sum_probs=32.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL  277 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~  277 (455)
                      +..+.|+|.+|+||||+|.|+...|   |+.+|.+|...+
T Consensus        23 ~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnv   62 (197)
T COG0529          23 GAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNV   62 (197)
T ss_pred             CeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecChhH
Confidence            4568899999999999999999988   888888876654

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=96.61  E-value=0.01  Score=66.64  Aligned_cols=63  Identities=21%  Similarity=0.339  Sum_probs=41.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC----------ChHHHHHHHHh-------hCCceEEEEecc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR----------SNSDLRRLLVS-------TGNRSILVIEDI  301 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~----------~~~~l~~ll~~-------~~~~~IL~iDEi  301 (455)
                      +-++|.|+||||||++++++...+   |..+.-+-.+...          ....+.+++..       .....+|+|||+
T Consensus       369 ~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~~~~g~~a~Ti~~~~~~~~~~~~~~~~~~llIvDEa  448 (744)
T TIGR02768       369 DIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQAESGIESRTLASLEYAWANGRDLLSDKDVLVIDEA  448 (744)
T ss_pred             CEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHhccCCceeeHHHHHhhhccCcccCCCCcEEEEECc
Confidence            467999999999999999997655   6666665443320          11223333221       124589999999


Q ss_pred             cch
Q 047029          302 DCS  304 (455)
Q Consensus       302 D~l  304 (455)
                      ..+
T Consensus       449 sMv  451 (744)
T TIGR02768       449 GMV  451 (744)
T ss_pred             ccC
Confidence            865

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=96.61  E-value=0.0066  Score=54.84  Aligned_cols=24  Identities=29%  Similarity=0.491  Sum_probs=19.4

Q ss_pred             ceeEEECCCCCChHH-HHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSS-LIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTs-la~alA~~l  265 (455)
                      +++++.||+|||||. ++..+...+
T Consensus        25 ~~~~i~~~~GsGKT~~~~~~~~~~~   49 (201)
T smart00487       25 RDVILAAPTGSGKTLAALLPALEAL   49 (201)
T ss_pred             CcEEEECCCCCchhHHHHHHHHHHh
Confidence            689999999999999 555555554

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.61  E-value=0.0043  Score=67.76  Aligned_cols=28  Identities=36%  Similarity=0.599  Sum_probs=24.4

Q ss_pred             CCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          238 KAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +++..-+.+.||+|+|||||++.+++.+
T Consensus       373 i~~G~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        373 LPAGQRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3445669999999999999999999976

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=96.61  E-value=0.012  Score=67.46  Aligned_cols=62  Identities=19%  Similarity=0.328  Sum_probs=41.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc----------CChHHHHHHHHh-------hCCceEEEEeccc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL----------RSNSDLRRLLVS-------TGNRSILVIEDID  302 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~----------~~~~~l~~ll~~-------~~~~~IL~iDEiD  302 (455)
                      -++|.|+||||||++++++...+   |+.++-+-.+..          .....+..++..       .....||||||+.
T Consensus       364 v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L~e~tGi~a~TI~sll~~~~~~~~~l~~~~vlIVDEAS  443 (988)
T PRK13889        364 LGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLEGGSGIASRTIASLEHGWGQGRDLLTSRDVLVIDEAG  443 (988)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHHhhccCcchhhHHHHHhhhcccccccccCcEEEEECcc
Confidence            46899999999999998876544   777776644332          012334444422       1245799999998


Q ss_pred             ch
Q 047029          303 CS  304 (455)
Q Consensus       303 ~l  304 (455)
                      .+
T Consensus       444 Mv  445 (988)
T PRK13889        444 MV  445 (988)
T ss_pred             cC
Confidence            65

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

Probab=96.60  E-value=0.0047  Score=53.55  Aligned_cols=64  Identities=28%  Similarity=0.332  Sum_probs=39.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCc--------------------EEEEeccccCChHHHHHHH--HhhCCceEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFD--------------------IYDMELASLRSNSDLRRLL--VSTGNRSILVI  298 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~--------------------v~~l~~~~~~~~~~l~~ll--~~~~~~~IL~i  298 (455)
                      ..-++|+|+=|+|||++++++|+.+|..                    ++-+|+--+.+..++..+-  ......+|.+|
T Consensus        15 g~vi~L~GdLGaGKTtf~r~l~~~lg~~~~V~SPTF~l~~~Y~~~~~~l~H~DLYRl~~~~e~~~~g~~e~~~~~~i~~I   94 (123)
T PF02367_consen   15 GDVILLSGDLGAGKTTFVRGLARALGIDEEVTSPTFSLVNEYEGGNIPLYHFDLYRLEDPEELEDLGLEEYLFEDGICVI   94 (123)
T ss_dssp             -EEEEEEESTTSSHHHHHHHHHHHTT--S----TTTTSEEEEEETTEEEEEEE-TT-SSTHHHHHCTTTTCSSSSEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHcCCCCCcCCCCeEEEEEecCCCceEEEeeccccCCHHHHHHCCchhhhCCCCEEEE
Confidence            4569999999999999999999999642                    3334444444444443321  22234677777


Q ss_pred             ecccch
Q 047029          299 EDIDCS  304 (455)
Q Consensus       299 DEiD~l  304 (455)
                      |=.+.+
T Consensus        95 EW~e~~  100 (123)
T PF02367_consen   95 EWPERL  100 (123)
T ss_dssp             ESGGGG
T ss_pred             ECcccc
Confidence            654443

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

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.59  E-value=0.012  Score=53.55  Aligned_cols=27  Identities=44%  Similarity=0.577  Sum_probs=23.6

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .+..-+.|.||+|+|||||++++++.+
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          25 KPGDRLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            334568999999999999999999986

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.59  E-value=0.0064  Score=62.57  Aligned_cols=81  Identities=20%  Similarity=0.301  Sum_probs=54.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC-------CcEEEEecccc--------------------CChHHHHHHHHhhCCc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK-------FDIYDMELASL--------------------RSNSDLRRLLVSTGNR  293 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~-------~~v~~l~~~~~--------------------~~~~~l~~ll~~~~~~  293 (455)
                      ++-+.|.||.|+||||.++-||..+.       ..++.+|.--+                    .+..++...+......
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~  282 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDC  282 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcC
Confidence            67799999999999988888877663       33444443222                    3456677777777777


Q ss_pred             eEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc
Q 047029          294 SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL  335 (455)
Q Consensus       294 ~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~  335 (455)
                      .+|++|=+....              .....+++|-.+++..
T Consensus       283 d~ILVDTaGrs~--------------~D~~~i~el~~~~~~~  310 (407)
T COG1419         283 DVILVDTAGRSQ--------------YDKEKIEELKELIDVS  310 (407)
T ss_pred             CEEEEeCCCCCc--------------cCHHHHHHHHHHHhcc
Confidence            899999887532              2334556666666654

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=96.59  E-value=0.0023  Score=62.18  Aligned_cols=31  Identities=32%  Similarity=0.535  Sum_probs=25.9

Q ss_pred             eEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      ++|.|+||+||||+|+++|..+   +.+++.++.
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~   35 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILGT   35 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEcc
Confidence            6899999999999999999988   456665543

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.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.59  E-value=0.0029  Score=57.91  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=23.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +.-++|.|+||+||||+++++++.+.
T Consensus         7 ~~~I~i~G~~GsGKst~a~~l~~~l~   32 (176)
T PRK05541          7 GYVIWITGLAGSGKTTIAKALYERLK   32 (176)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            45789999999999999999999985

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.58  E-value=0.002  Score=59.71  Aligned_cols=26  Identities=27%  Similarity=0.686  Sum_probs=23.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ...+++.||+|+||||+++++++.+.
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i~   50 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFIP   50 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            56899999999999999999999874

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]

Probab=96.58  E-value=0.0015  Score=69.78  Aligned_cols=116  Identities=16%  Similarity=0.283  Sum_probs=64.9

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc--c------CChHHHHHHHHh-----hCCceEEEEecccchhhhhh
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS--L------RSNSDLRRLLVS-----TGNRSILVIEDIDCSIELEN  309 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~--~------~~~~~l~~ll~~-----~~~~~IL~iDEiD~l~~~~~  309 (455)
                      ++||.|.||||||-+.+.+++-....++..-.+.  +      ....--++.-.+     ...+.|-+|||+|.+-+  .
T Consensus       484 nvLL~GDPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~KdPvtrEWTLEaGALVLADkGvClIDEFDKMnd--q  561 (854)
T KOG0477|consen  484 NVLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVRKDPVTREWTLEAGALVLADKGVCLIDEFDKMND--Q  561 (854)
T ss_pred             eEEEecCCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEeeCCccceeeeccCeEEEccCceEEeehhhhhcc--c
Confidence            4999999999999999999998877776543221  1      000001111111     13578999999998743  1


Q ss_pred             hcCCCCCCCCcchh--hHhhhhhhhhcccccCCCceEEEEEcCCC-----------C--CCCccccCCCceeEEE
Q 047029          310 RQCGGGYDENNSQV--TLSGLLNFVDGLWSSCGDERIIVFTTNYK-----------E--RLDPALLRPGRMDMHI  369 (455)
Q Consensus       310 ~~~~~~~~~~~~~~--~ls~LL~~ldg~~~~~~~~~ivI~TTN~~-----------~--~Ld~allRpGR~d~~I  369 (455)
                      .+......-..+..  .-.++...+.+       ...||+|+|+.           +  .|-+.++.  |||..-
T Consensus       562 DRtSIHEAMEQQSISISKAGIVtsLqA-------rctvIAAanPigGRY~~s~tFaqNV~ltePIlS--RFDiLc  627 (854)
T KOG0477|consen  562 DRTSIHEAMEQQSISISKAGIVTSLQA-------RCTVIAAANPIGGRYNPSLTFAQNVDLTEPILS--RFDILC  627 (854)
T ss_pred             ccchHHHHHHhcchhhhhhhHHHHHHh-------hhhhheecCCCCCccCCccchhhccccccchhh--hcceee
Confidence            11110000111111  22234444332       24588899873           1  45667788  998643

>PRK14529 adenylate kinase; Provisional

Probab=96.56  E-value=0.0017  Score=62.19  Aligned_cols=28  Identities=25%  Similarity=0.465  Sum_probs=25.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      .++|.||||+||||+++.||..+++..+
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~~~~~~~i   29 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKKKYDLAHI   29 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCCCc
Confidence            3789999999999999999999998765

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=96.56  E-value=0.0047  Score=67.35  Aligned_cols=27  Identities=22%  Similarity=0.431  Sum_probs=24.0

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ++..-+.+.||+|+|||||++.+++.+
T Consensus       367 ~~G~~~aIvG~sGsGKSTLl~ll~gl~  393 (582)
T PRK11176        367 PAGKTVALVGRSGSGKSTIANLLTRFY  393 (582)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            445569999999999999999999987

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.56  E-value=0.0028  Score=59.59  Aligned_cols=29  Identities=31%  Similarity=0.405  Sum_probs=25.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDI  269 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v  269 (455)
                      +.-+++.|+||+||||+++.+|..++...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~~~~~   31 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHRAIDI   31 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCeE
Confidence            45689999999999999999999998654

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=96.55  E-value=0.0024  Score=58.87  Aligned_cols=30  Identities=27%  Similarity=0.378  Sum_probs=26.5

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      +.|+|+||+||||+++.+++ +|+++++.|.
T Consensus         2 i~itG~~gsGKst~~~~l~~-~g~~~i~~D~   31 (179)
T cd02022           2 IGLTGGIGSGKSTVAKLLKE-LGIPVIDADK   31 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCCEEecCH
Confidence            67999999999999999999 8888877653

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.54  E-value=0.012  Score=57.61  Aligned_cols=40  Identities=20%  Similarity=0.228  Sum_probs=31.9

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEeccc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMELAS  276 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~~~  276 (455)
                      |+.+..-++|.||||+|||+++..+|..+    +.++..+.+..
T Consensus        26 G~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~   69 (271)
T cd01122          26 GLRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE   69 (271)
T ss_pred             EEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc
Confidence            56666779999999999999999887764    66777776543

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.53  E-value=0.0046  Score=68.78  Aligned_cols=28  Identities=21%  Similarity=0.307  Sum_probs=24.1

Q ss_pred             CCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          238 KAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +++..-+-+.|++|||||||++.+.+.+
T Consensus       496 I~~Ge~vaIvG~SGsGKSTL~KLL~gly  523 (709)
T COG2274         496 IPPGEKVAIVGRSGSGKSTLLKLLLGLY  523 (709)
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4444459999999999999999999887

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=96.53  E-value=0.0045  Score=63.33  Aligned_cols=24  Identities=38%  Similarity=0.502  Sum_probs=22.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .-+++.|.||||||.|+-.+|..+
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l   25 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKEL   25 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHh
Confidence            468999999999999999999998

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.52  E-value=0.0034  Score=57.41  Aligned_cols=33  Identities=21%  Similarity=0.374  Sum_probs=26.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      +.-+.|.|+||+|||+++++++..+   +.++..++
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id   39 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLD   39 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEc
Confidence            4568999999999999999999988   33444444

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=96.52  E-value=0.012  Score=59.78  Aligned_cols=130  Identities=17%  Similarity=0.248  Sum_probs=75.5

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC----------------------------hHHHHHHHHhh-
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS----------------------------NSDLRRLLVST-  290 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~----------------------------~~~l~~ll~~~-  290 (455)
                      .|..+.|||-.|||||.+++.+-+.++.+.+.+++-+.-+                            -..+..+|.+. 
T Consensus        29 ~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ecft~~~lle~IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~  108 (438)
T KOG2543|consen   29 IPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVECFTYAILLEKILNKSQLADKDGDKVEGDAENFSDFIYLLVQWP  108 (438)
T ss_pred             cceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHhccHHHHHHHHHHHhccCCCchhhhhhHHHHHHHHHHHHHhhH
Confidence            4667899999999999999999999988877776533200                            01222333331 


Q ss_pred             --C---CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCce
Q 047029          291 --G---NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRM  365 (455)
Q Consensus       291 --~---~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~  365 (455)
                        .   ....|++|.+|.+-+             -....+..|+..-.-+    ..+.++|...-++. .+.-+.+-|-+
T Consensus       109 ~~t~~d~~~~liLDnad~lrD-------------~~a~ll~~l~~L~el~----~~~~i~iils~~~~-e~~y~~n~g~~  170 (438)
T KOG2543|consen  109 AATNRDQKVFLILDNADALRD-------------MDAILLQCLFRLYELL----NEPTIVIILSAPSC-EKQYLINTGTL  170 (438)
T ss_pred             HhhccCceEEEEEcCHHhhhc-------------cchHHHHHHHHHHHHh----CCCceEEEEecccc-HHHhhcccCCC
Confidence              1   246899999998742             1123344443322111    12233333332210 01122234444


Q ss_pred             e-EEEEeCCCCHHHHHHHHHHhh
Q 047029          366 D-MHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       366 d-~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      + ..++||.++.++.++|+.+-.
T Consensus       171 ~i~~l~fP~Ys~~e~~~Il~~~~  193 (438)
T KOG2543|consen  171 EIVVLHFPQYSVEETQVILSRDN  193 (438)
T ss_pred             CceEEecCCCCHHHHHHHHhcCC
Confidence            4 567999999999888876543

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.52  E-value=0.0047  Score=66.59  Aligned_cols=27  Identities=30%  Similarity=0.532  Sum_probs=23.7

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ++..-+.+.||+|+|||||++.+++.+
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g~~  385 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTGLL  385 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            445569999999999999999999887

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=96.52  E-value=0.012  Score=54.18  Aligned_cols=26  Identities=35%  Similarity=0.502  Sum_probs=23.0

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +..-+.|.||+|+|||||++.+++.+
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34568999999999999999999976

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>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=96.51  E-value=0.0028  Score=57.25  Aligned_cols=36  Identities=28%  Similarity=0.400  Sum_probs=30.0

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL  277 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~  277 (455)
                      .-++|.|.||+|||++|+++.+.|   +.+++.++...+
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~l   41 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLFARGIKVYLLDGDNL   41 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEecCcch
Confidence            358899999999999999999988   778888876654

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 ....

>KOG0482 consensus DNA replication licensing factor, MCM7 component [Replication, recombination and repair]

Probab=96.46  E-value=0.0042  Score=64.99  Aligned_cols=169  Identities=21%  Similarity=0.139  Sum_probs=94.4

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhc--CCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHH
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVG--KAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRR  285 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g--~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~  285 (455)
                      .+.|..++|+.++-.|.   .+++.-..-|  +...-+++|-|.||+.||-|.+.+.+.....+|..--++-+  --|..
T Consensus       343 EIyGheDVKKaLLLlLV---Ggvd~~~~dGMKIRGdINicLmGDPGVAKSQLLkyi~rlapRgvYTTGrGSSG--VGLTA  417 (721)
T KOG0482|consen  343 EIYGHEDVKKALLLLLV---GGVDKSPGDGMKIRGDINICLMGDPGVAKSQLLKYISRLAPRGVYTTGRGSSG--VGLTA  417 (721)
T ss_pred             hhccchHHHHHHHHHhh---CCCCCCCCCCceeecceeEEecCCCchhHHHHHHHHHhcCcccceecCCCCCc--cccch
Confidence            46677888887765443   1211111011  22233599999999999999999999887777765433211  01111


Q ss_pred             H-HHh--------------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcC
Q 047029          286 L-LVS--------------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTN  350 (455)
Q Consensus       286 l-l~~--------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN  350 (455)
                      . +..              .....|-+|||+|.+.+. .|.. ..  +--.+++.|---   -|+...-....-|+++.|
T Consensus       418 AVmkDpvTgEM~LEGGALVLAD~GICCIDEfDKM~e~-DRtA-IH--EVMEQQTISIaK---AGI~TtLNAR~sILaAAN  490 (721)
T KOG0482|consen  418 AVMKDPVTGEMVLEGGALVLADGGICCIDEFDKMDES-DRTA-IH--EVMEQQTISIAK---AGINTTLNARTSILAAAN  490 (721)
T ss_pred             hhhcCCCCCeeEeccceEEEccCceEeehhhhhhhhh-hhHH-HH--HHHHhhhhhhhh---hccccchhhhHHhhhhcC
Confidence            1 100              124578999999987541 0000 00  000011111100   122222223345777887


Q ss_pred             CCC-------------CCCccccCCCceeEEEEe-CCCCHHHHHHHHHHhhccc
Q 047029          351 YKE-------------RLDPALLRPGRMDMHIHM-SYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       351 ~~~-------------~Ld~allRpGR~d~~I~~-~~p~~~~~~~L~~~~l~~~  390 (455)
                      +..             .|+.||++  |||...-+ +.|+.+.=..|+++..-.+
T Consensus       491 PayGRYnprrs~e~NI~LPaALLS--RFDll~Li~D~pdrd~D~~LA~HiTyVH  542 (721)
T KOG0482|consen  491 PAYGRYNPRRSPEQNINLPAALLS--RFDLLWLIQDRPDRDNDLRLAQHITYVH  542 (721)
T ss_pred             ccccccCcccChhHhcCCcHHHHH--hhhhhhhhccCCcccchHHHHHHhHhhh
Confidence            542             48899999  99976655 6788888778888765444

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=96.46  E-value=0.012  Score=64.02  Aligned_cols=85  Identities=22%  Similarity=0.387  Sum_probs=54.7

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCce-eEEECCCCCChHHHHHHHHHHcC---CcEEEEec-----
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRG-YLLYGPPGTGKSSLIAAMANYLK---FDIYDMEL-----  274 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg-~LL~GPpGTGKTsla~alA~~l~---~~v~~l~~-----  274 (455)
                      .+++++.+.++..+.+.+.+..               ++| +|+.||+|+||||+..++.++++   .+++.++-     
T Consensus       293 ~~l~~lg~~~~~~~~l~~~~~~---------------~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~tiEdpvE~~  357 (564)
T TIGR02538       293 LDIDKLGFEPDQKALFLEAIHK---------------PQGMVLVTGPTGSGKTVSLYTALNILNTEEVNISTAEDPVEIN  357 (564)
T ss_pred             CCHHHcCCCHHHHHHHHHHHHh---------------cCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEEecCCceec
Confidence            4688888888777666554431               345 78999999999999999888874   23443221     


Q ss_pred             -ccc-----C--ChHHHHHHHHhh--CCceEEEEecccc
Q 047029          275 -ASL-----R--SNSDLRRLLVST--GNRSILVIEDIDC  303 (455)
Q Consensus       275 -~~~-----~--~~~~l~~ll~~~--~~~~IL~iDEiD~  303 (455)
                       ..+     .  ....+...+...  ..|.||++.||..
T Consensus       358 ~~~~~q~~v~~~~g~~~~~~l~~~LR~dPDvI~vGEiRd  396 (564)
T TIGR02538       358 LPGINQVNVNPKIGLTFAAALRSFLRQDPDIIMVGEIRD  396 (564)
T ss_pred             CCCceEEEeccccCCCHHHHHHHHhccCCCEEEeCCCCC
Confidence             111     1  112334444333  3699999999964

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=96.45  E-value=0.031  Score=54.08  Aligned_cols=131  Identities=21%  Similarity=0.256  Sum_probs=73.9

Q ss_pred             Cce-eEEECCCCCChHHHHHHHHHHcCCc---EEEEecccc-------------CC-------------hHHHHHHHHhh
Q 047029          241 KRG-YLLYGPPGTGKSSLIAAMANYLKFD---IYDMELASL-------------RS-------------NSDLRRLLVST  290 (455)
Q Consensus       241 ~rg-~LL~GPpGTGKTsla~alA~~l~~~---v~~l~~~~~-------------~~-------------~~~l~~ll~~~  290 (455)
                      .+| +.++|+.|+|||.+.+|+...++-+   ++.++...+             .+             ...|..++..-
T Consensus        50 ~qg~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~~~g  129 (269)
T COG3267          50 GQGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVKKG  129 (269)
T ss_pred             CCceEEEEecCCCchhHHHHHHHHhcCCCceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHHHHhC
Confidence            454 6788999999999999888877432   223332222             11             12233333444


Q ss_pred             CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCC------Cc
Q 047029          291 GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRP------GR  364 (455)
Q Consensus       291 ~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRp------GR  364 (455)
                      ..|.++++||.+.+..             ..-..+.-|.|.-++...  .-.++.|+   +| +|.+.+++|      -|
T Consensus       130 ~r~v~l~vdEah~L~~-------------~~le~Lrll~nl~~~~~~--~l~ivL~G---qp-~L~~~lr~~~l~e~~~R  190 (269)
T COG3267         130 KRPVVLMVDEAHDLND-------------SALEALRLLTNLEEDSSK--LLSIVLIG---QP-KLRPRLRLPVLRELEQR  190 (269)
T ss_pred             CCCeEEeehhHhhhCh-------------hHHHHHHHHHhhcccccC--ceeeeecC---Cc-ccchhhchHHHHhhhhe
Confidence            5678999999997642             111222222232222111  11133333   22 123322211      29


Q ss_pred             eeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          365 MDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       365 ~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      ++..|++++.+.++....++..++..
T Consensus       191 ~~ir~~l~P~~~~~t~~yl~~~Le~a  216 (269)
T COG3267         191 IDIRIELPPLTEAETGLYLRHRLEGA  216 (269)
T ss_pred             EEEEEecCCcChHHHHHHHHHHHhcc
Confidence            99999999999998888888777654

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.44  E-value=0.0083  Score=59.26  Aligned_cols=37  Identities=27%  Similarity=0.248  Sum_probs=29.1

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELAS  276 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~  276 (455)
                      .++-++|.||+|+||||++..+|..+   |..+.-+++..
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~  110 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDT  110 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCC
Confidence            35678889999999999999999877   55665555543

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.

>PLN02459 probable adenylate kinase

Probab=96.44  E-value=0.0035  Score=61.35  Aligned_cols=30  Identities=20%  Similarity=0.452  Sum_probs=26.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .++|.||||+||||+++.+|+.+++..+..
T Consensus        31 ~ii~~G~PGsGK~T~a~~la~~~~~~~is~   60 (261)
T PLN02459         31 NWVFLGCPGVGKGTYASRLSKLLGVPHIAT   60 (261)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeC
Confidence            488899999999999999999998766543

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.43  E-value=0.011  Score=59.78  Aligned_cols=27  Identities=26%  Similarity=0.241  Sum_probs=23.8

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHH
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      |++...-+.++||||+|||+++..+|.
T Consensus        92 Gi~~g~i~~i~G~~g~GKT~l~~~~~~  118 (316)
T TIGR02239        92 GIETGSITEIFGEFRTGKTQLCHTLAV  118 (316)
T ss_pred             CCCCCeEEEEECCCCCCcCHHHHHHHH
Confidence            667777799999999999999998875

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).

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.43  E-value=0.0025  Score=58.35  Aligned_cols=25  Identities=28%  Similarity=0.381  Sum_probs=22.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      -+++.||||+||||++++|+..++.
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~~~~   27 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARARLAG   27 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCc
Confidence            4789999999999999999998854

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.42  E-value=0.0077  Score=60.44  Aligned_cols=40  Identities=15%  Similarity=0.168  Sum_probs=31.1

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---------CCcEEEEeccc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---------KFDIYDMELAS  276 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---------~~~v~~l~~~~  276 (455)
                      |++...-++++||||||||+++..+|-..         +-.+++++...
T Consensus        91 Gi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~  139 (310)
T TIGR02236        91 GIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTEN  139 (310)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCC
Confidence            67767778999999999999999998653         23666776554

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.41  E-value=0.007  Score=61.16  Aligned_cols=34  Identities=21%  Similarity=0.172  Sum_probs=27.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      +.-++|.||+|+||||++..+|..+   +..+..+++
T Consensus       114 ~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~  150 (318)
T PRK10416        114 PFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAG  150 (318)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEec
Confidence            4568899999999999999999987   445554444

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.41  E-value=0.0087  Score=60.32  Aligned_cols=53  Identities=11%  Similarity=0.039  Sum_probs=38.3

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHH---------cCCcEEEEeccccCChHHHHHHHHh
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANY---------LKFDIYDMELASLRSNSDLRRLLVS  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~---------l~~~v~~l~~~~~~~~~~l~~ll~~  289 (455)
                      |++...-+.++||||||||.++..+|-.         .+..+++++...--+...+.++...
T Consensus        92 Gi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a~~  153 (313)
T TIGR02238        92 GIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAER  153 (313)
T ss_pred             CCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHHHHH
Confidence            6777778999999999999999877632         2456777776654355666666543

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.

>cd03276 ABC_SMC6_euk Eukaryotic SMC6 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=96.41  E-value=0.014  Score=54.81  Aligned_cols=25  Identities=28%  Similarity=0.465  Sum_probs=20.7

Q ss_pred             Ccee-EEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGY-LLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~-LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..|+ .|+||.|+|||+++.|+...+
T Consensus        20 ~~gl~~i~G~NGsGKStll~ai~~~l   45 (198)
T cd03276          20 GPRVNFIVGNNGSGKSAILTALTIGL   45 (198)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            3454 799999999999999998644

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (for

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=96.40  E-value=0.0061  Score=66.66  Aligned_cols=28  Identities=29%  Similarity=0.456  Sum_probs=24.2

Q ss_pred             CCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          238 KAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +++..-+.+.||+|+|||||++.+++.+
T Consensus       358 i~~G~~v~IvG~sGsGKSTLl~lL~gl~  385 (588)
T PRK13657        358 AKPGQTVAIVGPTGAGKSTLINLLQRVF  385 (588)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            3445569999999999999999999887

>PRK12338 hypothetical protein; Provisional

Probab=96.39  E-value=0.0032  Score=63.26  Aligned_cols=29  Identities=24%  Similarity=0.321  Sum_probs=26.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDI  269 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v  269 (455)
                      |.-+++.|+|||||||+++++|..+|...
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l~~~~   32 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTLNIKH   32 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHCCCeE
Confidence            56789999999999999999999998754

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=96.38  E-value=0.023  Score=50.73  Aligned_cols=22  Identities=18%  Similarity=0.471  Sum_probs=19.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      ++++.|++|+|||+|+.++...
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~   22 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTL   22 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhh
Confidence            4789999999999999999764

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.

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=96.37  E-value=0.012  Score=60.45  Aligned_cols=27  Identities=44%  Similarity=0.771  Sum_probs=24.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      +..+++.||.|||||++++++.+.+..
T Consensus        22 ~~~~fv~G~~GtGKs~l~~~i~~~~~~   48 (364)
T PF05970_consen   22 GLNFFVTGPAGTGKSFLIKAIIDYLRS   48 (364)
T ss_pred             CcEEEEEcCCCCChhHHHHHHHHHhcc
Confidence            568899999999999999999988843

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.37  E-value=0.0058  Score=56.33  Aligned_cols=27  Identities=30%  Similarity=0.523  Sum_probs=24.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFD  268 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~  268 (455)
                      .-+.+.||+|+||||+++++++.++..
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~~~   30 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFSAK   30 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCCE
Confidence            358999999999999999999999864

>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional

Probab=96.36  E-value=0.0035  Score=67.87  Aligned_cols=32  Identities=19%  Similarity=0.379  Sum_probs=30.2

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      .++|.|+||+||||+.+.+|+.++++++++|.
T Consensus         8 ~i~LiG~~GaGKttvg~~LA~~L~~~fiD~D~   39 (542)
T PRK14021          8 QAVIIGMMGAGKTRVGKEVAQMMRLPFADADV   39 (542)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCEEEchH
Confidence            58999999999999999999999999999874

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=96.35  E-value=0.0072  Score=65.16  Aligned_cols=28  Identities=29%  Similarity=0.501  Sum_probs=24.1

Q ss_pred             CCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          238 KAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +++..-+.+.||+|+|||||++.+++.+
T Consensus       345 i~~G~~~~ivG~sGsGKSTL~~ll~g~~  372 (529)
T TIGR02857       345 VPPGERVALVGPSGAGKSTLLNLLLGFV  372 (529)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3445569999999999999999999877

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=96.34  E-value=0.0063  Score=68.06  Aligned_cols=28  Identities=25%  Similarity=0.293  Sum_probs=24.2

Q ss_pred             CCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          238 KAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +++..-+.+.||+|+|||||++.+++.+
T Consensus       502 i~~Ge~vaIvG~sGsGKSTLlklL~gl~  529 (710)
T TIGR03796       502 LQPGQRVALVGGSGSGKSTIAKLVAGLY  529 (710)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3445569999999999999999999887

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.32  E-value=0.029  Score=51.95  Aligned_cols=63  Identities=13%  Similarity=0.146  Sum_probs=43.1

Q ss_pred             EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhcccc--Cchh---HHHhccCCHHHHHHHHHHHHHHh
Q 047029          367 MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVE--VTPA---EEFMKSEDADVALNGLVDFLLRK  433 (455)
Q Consensus       367 ~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~~~--~tpa---~~l~~~~~~~~al~~l~~~l~~~  433 (455)
                      ..|.+.+|+.++.+.-+.    ..+.+..+.|.+-+..+.  +..+   .+++-++|.+.|+..+...+...
T Consensus       116 v~IFi~pPs~eeL~~RL~----~Rgtds~e~I~~Rl~~a~~Ei~~~~~fdyvivNdd~e~a~~~l~~ii~ae  183 (191)
T COG0194         116 VSIFILPPSLEELERRLK----GRGTDSEEVIARRLENAKKEISHADEFDYVIVNDDLEKALEELKSIILAE  183 (191)
T ss_pred             EEEEEcCCCHHHHHHHHH----ccCCCCHHHHHHHHHHHHHHHHHHHhCCEEEECccHHHHHHHHHHHHHHH
Confidence            568889999887654443    344556667776665432  2222   45667899999999998888755

>PLN02165 adenylate isopentenyltransferase

Probab=96.32  E-value=0.0037  Score=63.13  Aligned_cols=35  Identities=23%  Similarity=0.395  Sum_probs=29.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEecc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELA  275 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~  275 (455)
                      +..+.|.||+|+|||+|+.+||..++..++..|.-
T Consensus        43 g~iivIiGPTGSGKStLA~~LA~~l~~eIIsaDs~   77 (334)
T PLN02165         43 DKVVVIMGATGSGKSRLSVDLATRFPSEIINSDKM   77 (334)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHcCCceecCChh
Confidence            34689999999999999999999999877766544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	455
2r62_A	268	Crystal Structure Of Helicobacter Pylori Atp Depend		2e-12
2ce7_A	476	Edta Treated Length = 476		5e-12
4b4t_L	437	Near-Atomic Resolution Structural Model Of The Yeas		7e-12
1lv7_A	257	Crystal Structure Of The Aaa Domain Of Ftsh Length		7e-12
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		1e-11
3kds_E	465	Apo-ftsh Crystal Structure Length = 465		2e-11
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		6e-11
2dhr_A	499	Whole Cytosolic Region Of Atp-Dependent Metalloprot		7e-10
1ixz_A	254	Crystal Structure Of The Ftsh Atpase Domain From Th		7e-10
4eiw_A	508	Whole Cytosolic Region Of Atp-Dependent Metalloprot		8e-10
1iy2_A	278	Crystal Structure Of The Ftsh Atpase Domain From Th		9e-10
3h4m_A	285	Aaa Atpase Domain Of The Proteasome- Activating Nuc		1e-09
4b4t_I	437	Near-Atomic Resolution Structural Model Of The Yeas		2e-09
2qz4_A	262	Human Paraplegin, Aaa Domain In Complex With Adp Le		8e-09
4b4t_H	467	Near-Atomic Resolution Structural Model Of The Yeas		2e-08
4b4t_M	434	Near-Atomic Resolution Structural Model Of The Yeas		3e-08
3vfd_A	389	Human Spastin Aaa Domain Length = 389		5e-06
2x8a_A	274	Human Nuclear Valosin Containing Protein Like (Nvl)		2e-05
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		2e-05
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		2e-05
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		2e-05
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		3e-05
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		3e-05
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		3e-05
3cf0_A	301	Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH		4e-05

>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent Protease, Ftsh Length = 268

Iteration: 1
 Score = 70.5 bits (171), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 59/184 (32%), Positives = 88/184 (47%), Gaps = 18/184 (9%)
Query: 198 INLDHPST-FDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSS 256
           IN + P+  F  +A +   K+ +++ +D F+K  E Y+ +G    +G LL GPPGTGK+ 
Sbjct: 1   INAEKPNVRFKDMAGNEEAKEEVVEIVD-FLKYPERYANLGAKIPKGVLLVGPPGTGKTL 59
Query: 257 LIAAMANYLKFDIYDMEXXX-----XXXXXXXXXXXVSTGNR---SILVIEDIDCSIELE 308
           L  A+A       + M                      T  +   SI+ I++ID     +
Sbjct: 60  LAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAI--GK 117
Query: 309 NRQCGG---GYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRM 365
           +R  GG   G DE   + TL+ LL  +DG  S      I++  TN  E LDPAL+RPGR 
Sbjct: 118 SRAAGGVVSGNDE--REQTLNQLLAEMDGFGSENA-PVIVLAATNRPEILDPALMRPGRF 174
Query: 366 DMHI 369
           D  +
Sbjct: 175 DRQV 178

>pdb|2CE7|A Chain A, Edta Treated Length = 476

Iteration: 1
 Score = 69.3 bits (168), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 70/152 (46%), Gaps = 12/152 (7%)
Query: 226 FVKRREFYSRVGKAWKRGYLLYGPPGTGKSSL---IAAMANYLKF-----DIYDMEXXXX 277
           F+K    ++R+G    +G LL GPPGTGK+ L   +A  AN   F     D  ++     
Sbjct: 34  FLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVG 93
Query: 278 XXXXXXXXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS 337
                            I+ I++ID          GGG+DE     TL+ LL  +DG  S
Sbjct: 94  AARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQ--TLNQLLVEMDGFDS 151
Query: 338 SCGDERIIVFTTNYKERLDPALLRPGRMDMHI 369
             G   I++  TN  + LDPALLRPGR D  I
Sbjct: 152 KEGI--IVMAATNRPDILDPALLRPGRFDKKI 181

>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score = 68.6 bits (166), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 54/180 (30%), Positives = 81/180 (45%), Gaps = 15/180 (8%)
Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD--------IYDMEXXXXX 278
           +K  E + RVG    +G LLYGPPGTGK+ L  A+A  +  +        I D       
Sbjct: 201 LKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESA 260
Query: 279 XXXXXXXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNS-QVTLSGLLNFVDGLWS 337
                           I+ ++++D    +  R+   G   +   Q TL  LL  +DG + 
Sbjct: 261 RIIREMFAYAKEHEPCIIFMDEVDA---IGGRRFSEGTSADREIQRTLMELLTQMDG-FD 316
Query: 338 SCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGG-FKILAFNYLKIKSHSMFD 396
           + G  +II+  TN  + LDPALLRPGR+D  + +      G  +I   +  K+K    FD
Sbjct: 317 NLGQTKIIM-ATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFD 375

>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh Length = 257

Iteration: 1
 Score = 68.6 bits (166), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 49/159 (30%), Positives = 72/159 (45%), Gaps = 14/159 (8%)
Query: 220 IDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------DIYD 271
           + +L  +++    + ++G    +G L+ GPPGTGK+ L  A+A   K         D  +
Sbjct: 24  VAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVE 83
Query: 272 MEXXXXXXXXXXXXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF 331
           M                      I+ I++ID          GGG+DE     TL+ +L  
Sbjct: 84  MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQ--TLNQMLVE 141
Query: 332 VDGLWSSCGDERIIVF-TTNYKERLDPALLRPGRMDMHI 369
           +DG     G+E IIV   TN  + LDPALLRPGR D  +
Sbjct: 142 MDGFE---GNEGIIVIAATNRPDVLDPALLRPGRFDRQV 177

>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 405

Iteration: 1
 Score = 67.8 bits (164), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 53/159 (33%), Positives = 74/159 (46%), Gaps = 28/159 (17%)
Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANY--LKFDIYDMEXXXXXXXXXXX 284
           VK  E +  +G A  +G +LYGPPGTGK+ L  A+A++   KF                 
Sbjct: 168 VKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKF--------IRVSGAELV 219
Query: 285 XXXVSTGNR--------------SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN 330
              +  G+R              SI+ +++ID          GGG  E   Q T+  LLN
Sbjct: 220 QKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSE--VQRTMLELLN 277
Query: 331 FVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHI 369
            +DG  +S   +  I+  TN  + LDPALLRPGR+D  I
Sbjct: 278 QLDGFETSKNIK--IIMATNRLDILDPALLRPGRIDRKI 314

>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure Length = 465

Iteration: 1
 Score = 67.0 bits (162), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 69/152 (45%), Gaps = 12/152 (7%)
Query: 226 FVKRREFYSRVGKAWKRGYLLYGPPGTGKSSL---IAAMANYLKF-----DIYDMEXXXX 277
           F+K    ++R+G    +G LL GPPGTG + L   +A  AN   F     D  ++     
Sbjct: 34  FLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGEANVPFFHISGSDFVELFVGVG 93
Query: 278 XXXXXXXXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS 337
                            I+ I++ID          GGG+DE     TL+ LL  +DG  S
Sbjct: 94  AARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQ--TLNQLLVEMDGFDS 151
Query: 338 SCGDERIIVFTTNYKERLDPALLRPGRMDMHI 369
             G   I++  TN  + LDPALLRPGR D  I
Sbjct: 152 KEGI--IVMAATNRPDILDPALLRPGRFDKKI 181

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score = 65.5 bits (158), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 47/152 (30%), Positives = 68/152 (44%), Gaps = 12/152 (7%)
Query: 231 EFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEXX--------XXXXXXX 282
           + Y ++G    RG LLYGPPGTGK+ L+ A+AN  K     +                  
Sbjct: 196 DLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGPRMVR 255
Query: 283 XXXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDE 342
                      SI+ I+++D SI  +      G D    ++ +  LL  +DG   S   +
Sbjct: 256 DVFRLARENAPSIIFIDEVD-SIATKRFDAQTGSDREVQRILIE-LLTQMDGFDQSTNVK 313
Query: 343 RIIVFTTNYKERLDPALLRPGRMDMHIHMSYL 374
             ++  TN  + LDPALLRPGR+D  I    L
Sbjct: 314 --VIMATNRADTLDPALLRPGRLDRKIEFPSL 343

>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 499

Iteration: 1
 Score = 62.0 bits (149), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 49/153 (32%), Positives = 64/153 (41%), Gaps = 14/153 (9%)
Query: 226 FVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------DIYDMEXXXX 277
           F+K    +  +G    +G LL GPPG GK+ L  A+A   +         D  +M     
Sbjct: 49  FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 108
Query: 278 XXXXXXXXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS 337
                            I+ I++ID          GGG DE     TL+ LL  +DG   
Sbjct: 109 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQ--TLNQLLVEMDGFEK 166
Query: 338 SCGDERIIVF-TTNYKERLDPALLRPGRMDMHI 369
              D  I+V   TN  + LDPALLRPGR D  I
Sbjct: 167 ---DTAIVVMAATNRPDILDPALLRPGRFDRQI 196

>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 254

Iteration: 1
 Score = 62.0 bits (149), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 49/155 (31%), Positives = 65/155 (41%), Gaps = 14/155 (9%)
Query: 226 FVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------DIYDMEXXXX 277
           F+K    +  +G    +G LL GPPG GK+ L  A+A   +         D  +M     
Sbjct: 34  FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 93
Query: 278 XXXXXXXXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS 337
                            I+ I++ID          GGG DE     TL+ LL  +DG   
Sbjct: 94  AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQ--TLNQLLVEMDGFEK 151
Query: 338 SCGDERIIVF-TTNYKERLDPALLRPGRMDMHIHM 371
              D  I+V   TN  + LDPALLRPGR D  I +
Sbjct: 152 ---DTAIVVMAATNRPDILDPALLRPGRFDRQIAI 183

>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 508

Iteration: 1
 Score = 61.6 bits (148), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 49/153 (32%), Positives = 64/153 (41%), Gaps = 14/153 (9%)
Query: 226 FVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------DIYDMEXXXX 277
           F+K    +  +G    +G LL GPPG GK+ L  A+A   +         D  +M     
Sbjct: 58  FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 117
Query: 278 XXXXXXXXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS 337
                            I+ I++ID          GGG DE     TL+ LL  +DG   
Sbjct: 118 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQ--TLNQLLVEMDGFEK 175
Query: 338 SCGDERIIVF-TTNYKERLDPALLRPGRMDMHI 369
              D  I+V   TN  + LDPALLRPGR D  I
Sbjct: 176 ---DTAIVVMAATNRPDILDPALLRPGRFDRQI 205

>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 278

Iteration: 1
 Score = 61.6 bits (148), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 49/153 (32%), Positives = 64/153 (41%), Gaps = 14/153 (9%)
Query: 226 FVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------DIYDMEXXXX 277
           F+K    +  +G    +G LL GPPG GK+ L  A+A   +         D  +M     
Sbjct: 58  FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 117
Query: 278 XXXXXXXXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS 337
                            I+ I++ID          GGG DE     TL+ LL  +DG   
Sbjct: 118 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQ--TLNQLLVEMDGFEK 175
Query: 338 SCGDERIIVF-TTNYKERLDPALLRPGRMDMHI 369
              D  I+V   TN  + LDPALLRPGR D  I
Sbjct: 176 ---DTAIVVMAATNRPDILDPALLRPGRFDRQI 205

>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating Nucleotidase Length = 285

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 56/176 (31%), Positives = 75/176 (42%), Gaps = 16/176 (9%)
Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMA---NYLKFDIYDMEXXXX-----X 278
           +K  E + +VG    +G LLYGPPGTGK+ L  A+A   N     +   E          
Sbjct: 37  LKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGA 96
Query: 279 XXXXXXXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS 338
                          SI+ I++ID           GG  +   Q TL  LL  +DG + +
Sbjct: 97  SLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGG--DREVQRTLMQLLAEMDG-FDA 153
Query: 339 CGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM 394
            GD +II   TN  + LDPA+LRPGR D  I +      G        LKI +  M
Sbjct: 154 RGDVKII-GATNRPDILDPAILRPGRFDRIIEVPAPDEKG----RLEILKIHTRKM 204

>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 49/148 (33%), Positives = 71/148 (47%), Gaps = 14/148 (9%)
Query: 231 EFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLKF---DIYDMEXXXXXXXXX 282
           E Y  +G    +G +LYG PGTGK+ L  A+AN     +L+    ++             
Sbjct: 206 ELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLGDGPRLCR 265
Query: 283 XXXXXVSTGNRSILVIEDIDC-SIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGD 341
                      SI+ I++ID    +  +   GG   E   Q T+  LLN +DG +   GD
Sbjct: 266 QIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGG---EREIQRTMLELLNQLDG-FDDRGD 321
Query: 342 ERIIVFTTNYKERLDPALLRPGRMDMHI 369
            ++I+  TN  E LDPAL+RPGR+D  I
Sbjct: 322 VKVIM-ATNKIETLDPALIRPGRIDRKI 348

>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp Length = 262

Iteration: 1
 Score = 58.5 bits (140), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 73/152 (48%), Gaps = 11/152 (7%)
Query: 226 FVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM------EXXXXXX 279
           ++K  E + ++G    +G LL GPPG GK+ L  A+A   +     M      E      
Sbjct: 24  YLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLG 83
Query: 280 XXXXXXXXVSTGNRS--ILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS 337
                        R+  I+ I++ID ++  +      G+     + TL+ LL  +DG+ +
Sbjct: 84  AARVRSLFKEARARAPCIVYIDEID-AVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGT 142
Query: 338 SCGDERIIVFTTNYKERLDPALLRPGRMDMHI 369
           +  D  I++ +TN  + LD AL+RPGR+D H+
Sbjct: 143 T--DHVIVLASTNRADILDGALMRPGRLDRHV 172

>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 467

Iteration: 1
 Score = 57.0 bits (136), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 50/172 (29%), Positives = 74/172 (43%), Gaps = 16/172 (9%)
Query: 231 EFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMAN--------YLKFDIYDMEXXXXXXXXX 282
           E ++ +G    +G LLYGPPGTGK+    A+AN         +  ++             
Sbjct: 233 ERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARMVR 292
Query: 283 XXXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDE 342
                  T    I+  ++ID           GG  +N  Q T+  L+  +DG +   G+ 
Sbjct: 293 ELFEMARTKKACIIFFDEIDAVGGARFDDGAGG--DNEVQRTMLELITQLDG-FDPRGNI 349
Query: 343 RIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM 394
           +++ F TN    LDPALLRPGR+D  +  S     G      N  +I S SM
Sbjct: 350 KVM-FATNRPNTLDPALLRPGRIDRKVEFSLPDLEG----RANIFRIHSKSM 396

>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 434

Iteration: 1
 Score = 56.2 bits (134), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 47/155 (30%), Positives = 72/155 (46%), Gaps = 18/155 (11%)
Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAM-----ANYLKF---DIYDMEXXXXX 278
           +KR + +  +G    +G L+YGPPGTGK+ L  A      A +LK     +  M      
Sbjct: 201 MKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGA 260
Query: 279 XXXXXXXXXVSTGNRSILVIEDIDC--SIELENRQCGGGYDENNSQVTLSGLLNFVDGLW 336
                          +I+ I+++D   +   ++ + G    +   Q T+  LLN +DG  
Sbjct: 261 KLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSG----DREVQRTMLELLNQLDGFS 316
Query: 337 SSCGDERIIVF-TTNYKERLDPALLRPGRMDMHIH 370
           S   D+R+ V   TN  + LDPALLR GR+D  I 
Sbjct: 317 S---DDRVKVLAATNRVDVLDPALLRSGRLDRKIE 348

>pdb|3VFD|A Chain A, Human Spastin Aaa Domain Length = 389

Iteration: 1
 Score = 48.9 bits (115), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 52/168 (30%), Positives = 82/168 (48%), Gaps = 22/168 (13%)
Query: 206 FDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSL---IAAMA 262
           FD +A   + KQAL + +     R E ++ + +A  RG LL+GPPG GK+ L   +AA +
Sbjct: 114 FDDIAGQDLAKQALQEIVILPSLRPELFTGL-RAPARGLLLFGPPGNGKTMLAKAVAAES 172
Query: 263 NYLKFDI--------YDMEXXXXXXXXXXXXXXVSTGNRSILVIEDIDCSIELENRQCGG 314
           N   F+I        Y  E              +     SI+ I+ +D S+  E R+   
Sbjct: 173 NATFFNISAASLTSKYVGEGEKLVRALFAVARELQP---SIIFIDQVD-SLLCERRE--- 225
Query: 315 GYDENNSQVTLSGLLNFVDGLWSSCGDERIIVF-TTNYKERLDPALLR 361
           G  + + ++    L+ F DG+  S GD+R++V   TN  + LD A+LR
Sbjct: 226 GEHDASRRLKTEFLIEF-DGVQ-SAGDDRVLVMGATNRPQELDEAVLR 271

>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C- Terminal Aaa-Atpase Domain Length = 274

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 40/160 (25%), Positives = 68/160 (42%), Gaps = 17/160 (10%)
Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANY--LKF------DIYDMEXXXXX 278
           V+  + +  +G     G LL GPPG GK+ L  A+AN   L F      ++ +M      
Sbjct: 30  VRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESE 89
Query: 279 XXXXXXXXXVSTGNRSILVIEDIDC-SIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS 337
                           ++  +++D       +R+ G       S   ++ LL  +DGL +
Sbjct: 90  RAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGA------SVRVVNQLLTEMDGLEA 143
Query: 338 SCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPG 377
               +  I+  TN  + +DPA+LRPGR+D  + +    P 
Sbjct: 144 R--QQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPA 181

>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A Length = 816

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 43/176 (24%), Positives = 71/176 (40%), Gaps = 17/176 (9%)
Query: 232 FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------DIYDMEXXXXXXXXXX 283
            +  +G    RG LLYGPPGTGK+ +  A+AN            +I              
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 284 XXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER 343
                     +I+ I+++D +I  +  +  G  +       +S LL  +DGL        
Sbjct: 289 AFEEAEKNAPAIIFIDELD-AIAPKREKTHGEVERR----IVSQLLTLMDGLKQRA--HV 341
Query: 344 IIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIE 399
           I++  TN    +DPAL R GR D  + +    P     L    +  K+  + D+++
Sbjct: 342 IVMAATNRPNSIDPALRRFGRFDREVDIG--IPDATGRLEILQIHTKNMKLADDVD 395

>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Length = 806

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 43/176 (24%), Positives = 71/176 (40%), Gaps = 17/176 (9%)
Query: 232 FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------DIYDMEXXXXXXXXXX 283
            +  +G    RG LLYGPPGTGK+ +  A+AN            +I              
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 284 XXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER 343
                     +I+ I+++D +I  +  +  G  +       +S LL  +DGL        
Sbjct: 289 AFEEAEKNAPAIIFIDELD-AIAPKREKTHGEVERR----IVSQLLTLMDGLKQRA--HV 341
Query: 344 IIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIE 399
           I++  TN    +DPAL R GR D  + +    P     L    +  K+  + D+++
Sbjct: 342 IVMAATNRPNSIDPALRRFGRFDREVDIG--IPDATGRLEILQIHTKNMKLADDVD 395

>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain Of Membrane Fusion Atpase P97 Length = 458

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 43/176 (24%), Positives = 71/176 (40%), Gaps = 17/176 (9%)
Query: 232 FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------DIYDMEXXXXXXXXXX 283
            +  +G    RG LLYGPPGTGK+ +  A+AN            +I              
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 284 XXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER 343
                     +I+ I+++D +I  +  +  G  +       +S LL  +DGL        
Sbjct: 289 AFEEAEKNAPAIIFIDELD-AIAPKREKTHGEVERR----IVSQLLTLMDGLKQRA--HV 341
Query: 344 IIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIE 399
           I++  TN    +DPAL R GR D  + +    P     L    +  K+  + D+++
Sbjct: 342 IVMAATNRPNSIDPALRRFGRFDREVDIGI--PDATGRLEILQIHTKNMKLADDVD 395

>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 43/176 (24%), Positives = 71/176 (40%), Gaps = 17/176 (9%)
Query: 232 FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------DIYDMEXXXXXXXXXX 283
            +  +G    RG LLYGPPGTGK+ +  A+AN            +I              
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 284 XXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER 343
                     +I+ I+++D +I  +  +  G  +       +S LL  +DGL        
Sbjct: 289 AFEEAEKNAPAIIFIDELD-AIAPKREKTHGEVERR----IVSQLLTLMDGLKQRA--HV 341
Query: 344 IIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIE 399
           I++  TN    +DPAL R GR D  + +    P     L    +  K+  + D+++
Sbjct: 342 IVMAATNRPNSIDPALRRFGRFDREVDIGI--PDATGRLEILQIHTKNMKLADDVD 395

>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 43/176 (24%), Positives = 71/176 (40%), Gaps = 17/176 (9%)
Query: 232 FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------DIYDMEXXXXXXXXXX 283
            +  +G    RG LLYGPPGTGK+ +  A+AN            +I              
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 284 XXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER 343
                     +I+ I+++D +I  +  +  G  +       +S LL  +DGL        
Sbjct: 289 AFEEAEKNAPAIIFIDELD-AIAPKREKTHGEVERR----IVSQLLTLMDGLKQRA--HV 341
Query: 344 IIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIE 399
           I++  TN    +DPAL R GR D  + +    P     L    +  K+  + D+++
Sbjct: 342 IVMAATNRPNSIDPALRRFGRFDREVDIGI--PDATGRLEILQIHTKNMKLADDVD 395

>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 43/176 (24%), Positives = 71/176 (40%), Gaps = 17/176 (9%)
Query: 232 FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------DIYDMEXXXXXXXXXX 283
            +  +G    RG LLYGPPGTGK+ +  A+AN            +I              
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 284 XXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER 343
                     +I+ I+++D +I  +  +  G  +       +S LL  +DGL        
Sbjct: 289 AFEEAEKNAPAIIFIDELD-AIAPKREKTHGEVERR----IVSQLLTLMDGLKQRA--HV 341
Query: 344 IIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIE 399
           I++  TN    +DPAL R GR D  + +    P     L    +  K+  + D+++
Sbjct: 342 IVMAATNRPNSIDPALRRFGRFDREVDIGI--PDATGRLEILQIHTKNMKLADDVD 395

>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP Length = 301

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 43/165 (26%), Positives = 71/165 (43%), Gaps = 19/165 (11%)
Query: 215 LKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF------- 267
           L Q  ++  D+F+K        G    +G L YGPPG GK+ L  A+AN  +        
Sbjct: 30  LVQYPVEHPDKFLK-------FGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKG 82
Query: 268 -DIYDMEXXXXXXXXXXXXXXVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLS 326
            ++  M                      +L  +++D SI  + R    G     +   ++
Sbjct: 83  PELLTMWFGESEANVREIFDKARQAAPCVLFFDELD-SI-AKARGGNIGDGGGAADRVIN 140
Query: 327 GLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHM 371
            +L  +DG+  S      I+  TN  + +DPA+LRPGR+D  I++
Sbjct: 141 QILTEMDGM--STKKNVFIIGATNRPDIIDPAILRPGRLDQLIYI 183

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	455
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-17
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-13
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	1e-14
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	1e-14
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	1e-14
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	3e-14
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	5e-14
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	6e-14
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	2e-13
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	6e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-11
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-11
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	4e-11
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	5e-11
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	1e-10
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	2e-10
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	2e-10
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	4e-10
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	5e-08
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	5e-08
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	1e-07
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	2e-07
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	5e-07
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	2e-06
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	3e-06
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	6e-06
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	5e-04
2qgz_A	308	Helicase loader, putative primosome component; str	6e-06
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	2e-05
2fna_A	357	Conserved hypothetical protein; structural genomic	4e-05
2chg_A	226	Replication factor C small subunit; DNA-binding pr	2e-04
2chq_A	319	Replication factor C small subunit; DNA-binding pr	8e-04

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score = 72.7 bits (179), Expect = 1e-14
 Identities = 55/183 (30%), Positives = 87/183 (47%), Gaps = 33/183 (18%)

Query: 205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANY 264
           TF  +A     K+ + + ++ +++    + ++G    +G L+ GPPGTGK+ L  A+A  
Sbjct: 10  TFADVAGCDEAKEEVAELVE-YLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE 68

Query: 265 LKFDIYDMELASLRSNSDLRRLLVSTG-NR-------------SILVIEDIDCSIELENR 310
            K   + +      S SD   + V  G +R              I+ I++ID       R
Sbjct: 69  AKVPFFTI------SGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAV----GR 118

Query: 311 Q----CGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMD 366
           Q     GGG+DE     TL+ +L  +DG   + G   I++  TN  + LDPALLRPGR D
Sbjct: 119 QRGAGLGGGHDEREQ--TLNQMLVEMDGFEGNEG--IIVIAATNRPDVLDPALLRPGRFD 174

Query: 367 MHI 369
             +
Sbjct: 175 RQV 177

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A* Length = 254

 Score = 72.4 bits (178), Expect = 1e-14
 Identities = 56/186 (30%), Positives = 79/186 (42%), Gaps = 39/186 (20%)

Query: 205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSL---IAAM 261
           TF  +A     K+ L + ++ F+K    +  +G    +G LL GPPG GK+ L   +A  
Sbjct: 14  TFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 72

Query: 262 ANYLKFDIYDMELASLRSNSDLRRLLVSTG-NR-------------SILVIEDIDCSIEL 307
           A                S SD   + V  G  R              I+ I++ID     
Sbjct: 73  ARVPFITA---------SGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAV--- 120

Query: 308 ENRQ----CGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPG 363
             R+     GGG DE   + TL+ LL  +DG         +++  TN  + LDPALLRPG
Sbjct: 121 -GRKRGSGVGGGNDER--EQTLNQLLVEMDGFEKDTA--IVVMAATNRPDILDPALLRPG 175

Query: 364 RMDMHI 369
           R D  I
Sbjct: 176 RFDRQI 181

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score = 72.8 bits (179), Expect = 1e-14
 Identities = 56/192 (29%), Positives = 79/192 (41%), Gaps = 31/192 (16%)

Query: 195 ADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGK 254
           A  +      TF  +A     K+ L + ++ F+K    +  +G    +G LL GPPG GK
Sbjct: 28  ARVLTEAPKVTFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGK 86

Query: 255 SSL---IAAMANYLKFDIYDMELASLRSNSDLRRLLVSTG-NR-------------SILV 297
           + L   +A  A                S SD   + V  G  R              I+ 
Sbjct: 87  THLARAVAGEARVPFITA---------SGSDFVEMFVGVGAARVRDLFETAKRHAPCIVF 137

Query: 298 IEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDP 357
           I++ID          GGG DE   + TL+ LL  +DG         +++  TN  + LDP
Sbjct: 138 IDEIDAVGRKRGSGVGGGNDER--EQTLNQLLVEMDGFEKDTA--IVVMAATNRPDILDP 193

Query: 358 ALLRPGRMDMHI 369
           ALLRPGR D  I
Sbjct: 194 ALLRPGRFDRQI 205

>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* Length = 268

 Score = 71.5 bits (176), Expect = 3e-14
 Identities = 57/188 (30%), Positives = 84/188 (44%), Gaps = 41/188 (21%)

Query: 205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSL---IAAM 261
            F  +A +   K+ +++ +D F+K  E Y+ +G    +G LL GPPGTGK+ L   +A  
Sbjct: 9   RFKDMAGNEEAKEEVVEIVD-FLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGE 67

Query: 262 ANYLKFDIYDMELASLRSNSDLRRLLVSTG-NR-------------SILVIEDIDCSIEL 307
           A+   F +           S    + V  G +R             SI+ I++ID     
Sbjct: 68  AHVPFFSM---------GGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAI--- 115

Query: 308 ENRQ-----CGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVF-TTNYKERLDPALLR 361
             +         G DE     TL+ LL  +DG  S   +  +IV   TN  E LDPAL+R
Sbjct: 116 -GKSRAAGGVVSGNDEREQ--TLNQLLAEMDGFGS--ENAPVIVLAATNRPEILDPALMR 170

Query: 362 PGRMDMHI 369
           PGR D  +
Sbjct: 171 PGRFDRQV 178

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score = 71.4 bits (175), Expect = 5e-14
 Identities = 36/170 (21%), Positives = 60/170 (35%), Gaps = 24/170 (14%)

Query: 223 LDRFVKR--REFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM---ELAS- 276
           +D+ V    + F             ++G  G GKS     +   +  +   M   EL S 
Sbjct: 16  MDKLVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESG 75

Query: 277 --------LRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQV--TLS 326
                   +R        ++  GN   L I D+D +           Y  NN  V  TL 
Sbjct: 76  NAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLD-AG-AGRMGGTTQYTVNNQMVNATLM 133

Query: 327 GLLNF-----VDGLWSSCGDERI-IVFTTNYKERLDPALLRPGRMDMHIH 370
            + +      + G+++   + R+ I+ T N    L   L+R GRM+    
Sbjct: 134 NIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW 183

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score = 72.5 bits (178), Expect = 6e-14
 Identities = 45/160 (28%), Positives = 69/160 (43%), Gaps = 31/160 (19%)

Query: 228 KRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM---ELASLR---SNS 281
           +    +  +G    RG LLYGPPGTGK+ +  A+AN      + +   E+ S     S S
Sbjct: 225 RHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES 284

Query: 282 DLRRL--LVSTGNRSILVIEDIDC--------SIELENRQCGGGYDENNSQVTLSGLLNF 331
           +LR+          +I+ I+++D           E+E R              +S LL  
Sbjct: 285 NLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERR-------------IVSQLLTL 331

Query: 332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHM 371
           +DGL        I++  TN    +DPAL R GR D  + +
Sbjct: 332 MDGL--KQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score = 70.0 bits (172), Expect = 2e-13
 Identities = 52/150 (34%), Positives = 72/150 (48%), Gaps = 12/150 (8%)

Query: 228 KRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---FDIYDMELASL---RSNS 281
           K  E + +VG    +G LLYGPPGTGK+ L  A+A         +   EL         S
Sbjct: 38  KHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGAS 97

Query: 282 DLRRLLVSTGNR--SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSC 339
            ++ +      +  SI+ I++ID +I    R       +   Q TL  LL  +DG   + 
Sbjct: 98  LVKDIFKLAKEKAPSIIFIDEID-AIA-AKRTDALTGGDREVQRTLMQLLAEMDGF-DAR 154

Query: 340 GDERIIVFTTNYKERLDPALLRPGRMDMHI 369
           GD +II   TN  + LDPA+LRPGR D  I
Sbjct: 155 GDVKIIG-ATNRPDILDPAILRPGRFDRII 183

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Length = 262

 Score = 67.6 bits (166), Expect = 6e-13
 Identities = 44/165 (26%), Positives = 74/165 (44%), Gaps = 35/165 (21%)

Query: 226 FVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRR 285
           ++K  E + ++G    +G LL GPPG GK+ L  A+A   +     M      + ++   
Sbjct: 24  YLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAM------AGAEFVE 77

Query: 286 LLVSTG-NR-------------SILVIEDIDCSIELENRQ-----CGGGYDENNSQVTLS 326
           ++   G  R              I+ I++ID       ++      G    E     TL+
Sbjct: 78  VIGGLGAARVRSLFKEARARAPCIVYIDEIDAV----GKKRSTTMSGFSNTEEEQ--TLN 131

Query: 327 GLLNFVDGLWSSCGDERIIVF-TTNYKERLDPALLRPGRMDMHIH 370
            LL  +DG+ +    + +IV  +TN  + LD AL+RPGR+D H+ 
Sbjct: 132 QLLVEMDGMGT---TDHVIVLASTNRADILDGALMRPGRLDRHVF 173

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 69.1 bits (168), Expect = 1e-12
 Identities = 60/419 (14%), Positives = 123/419 (29%), Gaps = 143/419 (34%)

Query: 32  TNQFIPQKLQDILSSKLEGLFGKF-----SDQLTLIIEQSEGFSVNEIYQAAELYLSTRI 86
           T +    + +DILS   +     F      D    I+ + E   ++ I  +         
Sbjct: 11  TGE-HQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEE---IDHIIMSK-------- 58

Query: 87  TPSIQQLRVSQAPREKSLSVTINEGQKVVDTFEGMQLT------WELVTTENQKTSLDYD 140
             ++           +     +++ +++V  F    L          + TE ++ S+   
Sbjct: 59  -DAVSGTL-------RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTR 110

Query: 141 SGLYASETAHKSFHLSFSKLFKDKVLNKYLPYVAERSKAIKETKKVIKLYSLCAADAINL 200
             +Y  +           +L+ D  +  +  Y   R +   + ++   L  L        
Sbjct: 111 --MYIEQR---------DRLYNDNQV--FAKYNVSRLQPYLKLRQ--ALLEL-------- 147

Query: 201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAA 260
                                       R            +  L+ G  G+GK+ +   
Sbjct: 148 ----------------------------RPA----------KNVLIDGVLGSGKTWVALD 169

Query: 261 MANYLK------FDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCS-IELENRQCG 313
           +    K      F I+ + L +  S   +  +L     +       ID +     +    
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ-------IDPNWTSRSDHSSN 222

Query: 314 GGYDENNSQVTLSGLLNF---------VDGLWSS---------CGDERIIVFTTNYK--- 352
                ++ Q  L  LL           +  + ++         C   +I++ TT +K   
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC---KILL-TTRFKQVT 278

Query: 353 ERLDPALLRPGRMDMHIHMSYLTPG-GFKILAFNYLKIKSHSMFDEIEELIKEV-EVTP 409
           + L  A      +D H     LTP     +L   YL  +        ++L +EV    P
Sbjct: 279 DFLSAATTTHISLDHHSMT--LTPDEVKSLLL-KYLDCR-------PQDLPREVLTTNP 327

>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 = 66.0 bits (160), Expect = 1e-11
 Identities = 87/529 (16%), Positives = 164/529 (31%), Gaps = 173/529 (32%)

Query: 26  NEVQTITNQFIP-----QKLQDILSS-------KLEGL--FGK----------------F 55
           N+ Q      +       KL+  L          ++G+   GK                 
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180

Query: 56  SDQ---LTLIIEQSEGFSVNEIYQAAELYLSTRITPSIQQ------------------LR 94
             +   L L    S   +V E+ Q     L  +I P+                     LR
Sbjct: 181 DFKIFWLNLKNCNSPE-TVLEMLQK----LLYQIDPNWTSRSDHSSNIKLRIHSIQAELR 235

Query: 95  --VSQAPREKSLSVTIN-EGQKVVDTFE-GMQLTWELVTTENQKTSLDYDSGLYASETAH 150
             +   P E  L V +N +  K  + F    ++   L+TT   K   D+ S    +  + 
Sbjct: 236 RLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKI---LLTTRF-KQVTDFLSAATTTHISL 291

Query: 151 KSFHLSFSK-----LFKDKVLN---KYLPYVAERSKAIKETKKVIKLY-SLCAADAINLD 201
               ++ +      L   K L+   + LP         +E         S+ A      D
Sbjct: 292 DHHSMTLTPDEVKSLLL-KYLDCRPQDLP---------REVLTTNPRRLSIIAESIR--D 339

Query: 202 HPSTFDTLAMDPVLKQALIDDLDRFVKR----------REFYSRVGKAWKRGYLLYGPPG 251
             +T+D        K    D L   ++           R+ + R+        +   PP 
Sbjct: 340 GLATWDNW------KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS-------VF--PPS 384

Query: 252 TG-KSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENR 310
               + L++ +   +      + +  L   S    L+      S + I  I   ++++  
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHKYS----LVEKQPKESTISIPSIYLELKVKL- 439

Query: 311 QCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDM--- 367
                  EN   +                   R IV   N  +  D   L P  +D    
Sbjct: 440 -------ENEYAL------------------HRSIVDHYNIPKTFDSDDLIPPYLDQYFY 474

Query: 368 -HI--HMSYLTPGG----FKI--LAFNYL--KIK--------SHSMFDEIEELIKEVEVT 408
            HI  H+  +        F++  L F +L  KI+        S S+ + +++L       
Sbjct: 475 SHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKF----- 529

Query: 409 PAEEFMKSEDA--DVALNGLVDFLLRKKEQTMKCNEEE--NESLKNEED 453
             + ++   D   +  +N ++DFL + +E  +     +    +L  E++
Sbjct: 530 -YKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDE 577

>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} Length = 301

 Score = 63.8 bits (156), Expect = 2e-11
 Identities = 46/179 (25%), Positives = 82/179 (45%), Gaps = 42/179 (23%)

Query: 215 LKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMAN--YLKF----- 267
           +K+ L + +   V+  + + + G    +G L YGPPG GK+ L  A+AN     F     
Sbjct: 23  VKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKG 82

Query: 268 -DIYDM---ELASLRSNSDLRRLLVSTGNR------SILVIEDIDCSIELENRQCGGGYD 317
            ++  M   E     S +++R +     ++       +L  +++D SI  + R   GG  
Sbjct: 83  PELLTMWFGE-----SEANVREIF----DKARQAAPCVLFFDELD-SI-AKAR---GGNI 128

Query: 318 ENNSQVT---LSGLLNFVDGLWSSCGDERIIVF---TTNYKERLDPALLRPGRMDMHIH 370
            +        ++ +L  +DG+       +  VF    TN  + +DPA+LRPGR+D  I+
Sbjct: 129 GDGGGAADRVINQILTEMDGM-----STKKNVFIIGATNRPDIIDPAILRPGRLDQLIY 182

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score = 62.7 bits (153), Expect = 4e-11
 Identities = 50/190 (26%), Positives = 81/190 (42%), Gaps = 18/190 (9%)

Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS-----NS 281
             R E ++ +    K G LL+GPPG GK+ L  A+A        ++  ASL S       
Sbjct: 41  SVRPELFTGLRAPAK-GLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGE 99

Query: 282 DLRRLLVSTGNR---SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS 338
            L R L +       SI+ I+++D S+ L  R      +   S+   +  L   DGL  +
Sbjct: 100 KLVRALFAVARHMQPSIIFIDEVD-SL-LSER---SSSEHEASRRLKTEFLVEFDGLPGN 154

Query: 339 CGDERIIVF-TTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD- 396
              +RI+V   TN  + LD A LR  R    +++S       ++L    L+ +   +   
Sbjct: 155 PDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTE 212

Query: 397 EIEELIKEVE 406
            +  L K  +
Sbjct: 213 ALRRLAKITD 222

>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* Length = 272

 Score = 62.1 bits (151), Expect = 5e-11
 Identities = 33/164 (20%), Positives = 63/164 (38%), Gaps = 22/164 (13%)

Query: 217 QALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIY------ 270
             ++DD +  V++ +   R         LL GPP +GK++L A +A    F         
Sbjct: 43  TRVLDDGELLVQQTKNSDRTPL---VSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPD 99

Query: 271 DMELASLRSNSDLRRLLVSTGNR---SILVIEDIDCSIELENRQCGGGYDENNSQVTLSG 327
            M   S  +     + +     +   S +V++DI+  + L+    G  +    S + L  
Sbjct: 100 KMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIE-RL-LDYVPIGPRF----SNLVLQA 153

Query: 328 LLNFVDGLWSSCGDERIIVF-TTNYKERLDPALLRPGRMDMHIH 370
           LL  +          ++++  TT+ K+ L   +         IH
Sbjct: 154 LLVLLKKAPPQ--GRKLLIIGTTSRKDVLQ-EMEMLNAFSTTIH 194

>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} Length = 357

 Score = 61.7 bits (150), Expect = 1e-10
 Identities = 52/245 (21%), Positives = 112/245 (45%), Gaps = 21/245 (8%)

Query: 174 AERSKAIKETKKVI--KLYSLCAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRRE 231
            E +  + E  K +  K+  L   + ++   P  ++ +A     K  + + +   + R +
Sbjct: 49  TEPAHPVDERLKNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPD 108

Query: 232 FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS-----NSDLRRL 286
            ++ +    K G LL+GPPGTGK+ +   +A+      + +  +SL S        + R 
Sbjct: 109 IFTGLRGPPK-GILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRA 167

Query: 287 LVSTGNR---SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER 343
           L +       +++ I++ID S+ L  R   G  +  +S+   +  L  +DG  +S  ++R
Sbjct: 168 LFAVARCQQPAVIFIDEID-SL-LSQR---GDGEHESSRRIKTEFLVQLDGATTS-SEDR 221

Query: 344 IIVF-TTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD-EIEEL 401
           I+V   TN  + +D A  R  R+   +++        K +  N +  +   + + EIE++
Sbjct: 222 ILVVGATNRPQEIDEAARR--RLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQI 279

Query: 402 IKEVE 406
           +++ +
Sbjct: 280 VQQSD 284

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score = 61.4 bits (149), Expect = 2e-10
 Identities = 51/190 (26%), Positives = 86/190 (45%), Gaps = 19/190 (10%)

Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS-----NS 281
             R E ++ +    + G LL+GPPG GK+ L  A+A       +++  ASL S       
Sbjct: 135 SLRPELFTGLRAPAR-GLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGE 193

Query: 282 DLRRLLVSTGNR---SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS 338
            L R L +       SI+ I+ +D S+ L  R      + + S+   +  L   DG+  S
Sbjct: 194 KLVRALFAVARELQPSIIFIDQVD-SL-LCER---REGEHDASRRLKTEFLIEFDGV-QS 247

Query: 339 CGDERIIVF-TTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD- 396
            GD+R++V   TN  + LD A+LR  R    +++S        +L  N L  +   +   
Sbjct: 248 AGDDRVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQK 305

Query: 397 EIEELIKEVE 406
           E+ +L +  +
Sbjct: 306 ELAQLARMTD 315

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus} Length = 499

 Score = 61.5 bits (150), Expect = 2e-10
 Identities = 55/166 (33%), Positives = 70/166 (42%), Gaps = 40/166 (24%)

Query: 226 FVKRREFYSRVGKAWKRGYLLYGPPGTGKSSL---IAAMANYLKFDIYDMELASLRSNSD 282
           F+K    +  +G    +G LL GPPG GK+ L   +A  A                S SD
Sbjct: 49  FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITA---------SGSD 99

Query: 283 LRRLLVSTG-NR-------------SILVIEDIDCSIELENRQ----CGGGYDENNSQVT 324
              + V  G  R              I+ I++ID       R+     GGG DE   Q T
Sbjct: 100 FVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAV----GRKRGSGVGGGNDER-EQ-T 153

Query: 325 LSGLLNFVDGLWSSCGDERIIVFT-TNYKERLDPALLRPGRMDMHI 369
           L+ LL  +DG      D  I+V   TN  + LDPALLRPGR D  I
Sbjct: 154 LNQLLVEMDGFE---KDTAIVVMAATNRPDILDPALLRPGRFDRQI 196

>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* Length = 476

 Score = 60.7 bits (148), Expect = 4e-10
 Identities = 62/166 (37%), Positives = 76/166 (45%), Gaps = 40/166 (24%)

Query: 226 FVKRREFYSRVGKAWKRGYLLYGPPGTGKSSL---IAAMANYLKFDIYDMELASLRSNSD 282
           F+K    ++R+G    +G LL GPPGTGK+ L   +A  AN   F I         S SD
Sbjct: 34  FLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHI---------SGSD 84

Query: 283 LRRLLVSTG-NR-------------SILVIEDIDCSIELENRQ----CGGGYDENNSQVT 324
              L V  G  R              I+ I++ID       R      GGG+DE   Q T
Sbjct: 85  FVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAV----GRHRGAGLGGGHDER-EQ-T 138

Query: 325 LSGLLNFVDGLWSSCGDERIIVFT-TNYKERLDPALLRPGRMDMHI 369
           L+ LL  +DG       E IIV   TN  + LDPALLRPGR D  I
Sbjct: 139 LNQLLVEMDGF---DSKEGIIVMAATNRPDILDPALLRPGRFDKKI 181

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score = 53.5 bits (129), Expect = 5e-08
 Identities = 42/154 (27%), Positives = 68/154 (44%), Gaps = 20/154 (12%)

Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK----FDIYDMELAS---LRS 279
           +K    ++     W+ G LL+GPPGTGKS L  A+A        F I   +L S     S
Sbjct: 32  IKFPHLFTGKRTPWR-GILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGES 90

Query: 280 NSDLRRL--LVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS 337
              ++ L  L      SI+ I++ID S+   +R      +   ++   +  L  + G+  
Sbjct: 91  EKLVKNLFQLARENKPSIIFIDEID-SL-CGSR---SENESEAARRIKTEFLVQMQGV-- 143

Query: 338 SCGDERIIVF-TTNYKERLDPALLRPGRMDMHIH 370
              ++ I+V   TN    LD A+ R  R +  I+
Sbjct: 144 GVDNDGILVLGATNIPWVLDSAIRR--RFEKRIY 175

>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 Length = 322

 Score = 53.5 bits (129), Expect = 5e-08
 Identities = 42/153 (27%), Positives = 68/153 (44%), Gaps = 19/153 (12%)

Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---FDIYDMELASL---RSN 280
           VK    +    K    G LLYGPPGTGKS L  A+A       F +   +L S     S 
Sbjct: 38  VKFPHLFKGNRKPTS-GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESE 96

Query: 281 SDLRRL--LVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS 338
             +++L  +      SI+ I+ +D ++    R   G  +   S+   + LL  ++G+   
Sbjct: 97  KLVKQLFAMARENKPSIIFIDQVD-AL-TGTR---GEGESEASRRIKTELLVQMNGV--G 149

Query: 339 CGDERIIVF-TTNYKERLDPALLRPGRMDMHIH 370
              + ++V   TN   +LD A+ R  R +  I+
Sbjct: 150 NDSQGVLVLGATNIPWQLDSAIRR--RFERRIY 180

>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 Length = 377

 Score = 52.7 bits (126), Expect = 1e-07
 Identities = 24/104 (23%), Positives = 46/104 (44%), Gaps = 11/104 (10%)

Query: 241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIED 300
           KR +L  GP  +GK++L AA+         ++ L   R N +L   +    ++ ++V ED
Sbjct: 169 KRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAI----DQFLVVFED 224

Query: 301 ID-CSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER 343
           +     E  +   G G +       L  L +++DG      +++
Sbjct: 225 VKGTGGESRDLPSGQGIN------NLDNLRDYLDGSVKVNLEKK 262

>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 Length = 516

 Score = 51.8 bits (124), Expect = 2e-07
 Identities = 26/101 (25%), Positives = 45/101 (44%), Gaps = 9/101 (8%)

Query: 203 PSTFDTLAMDP----VLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLI 258
           P+    +  +      LK  L +  +      +   + G    R  +LYGPPG GK++  
Sbjct: 35  PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAA 94

Query: 259 AAMANYLKFDIYDMEL-AS-LRSNSDLR-RLLVSTGNRSIL 296
             +A  L +DI  +E  AS +RS + L   +  +  N S++
Sbjct: 95  HLVAQELGYDI--LEQNASDVRSKTLLNAGVKNALDNMSVV 133

>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 Length = 444

 Score = 50.7 bits (121), Expect = 5e-07
 Identities = 46/191 (24%), Positives = 82/191 (42%), Gaps = 21/191 (10%)

Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK----FDIYDMELASLR---S 279
           +K    ++     W+ G LL+GPPGTGKS L  A+A        F I   +L S     S
Sbjct: 154 IKFPHLFTGKRTPWR-GILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGES 212

Query: 280 NSDLRRL--LVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS 337
              ++ L  L      SI+ I++ID S+   +R      +   ++   +  L  + G+  
Sbjct: 213 EKLVKNLFQLARENKPSIIFIDEID-SL-CGSR---SENESEAARRIKTEFLVQMQGVGV 267

Query: 338 SCGDERIIVF-TTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD 396
              ++ I+V   TN    LD A+ R  R +  I++          +   +L    +S+ +
Sbjct: 268 D--NDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTE 323

Query: 397 E-IEELIKEVE 406
              +EL ++ +
Sbjct: 324 ADFQELGRKTD 334

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426} Length = 202

 Score = 47.4 bits (113), Expect = 2e-06
 Identities = 33/180 (18%), Positives = 62/180 (34%), Gaps = 33/180 (18%)

Query: 182 ETKKVIKLYSLCAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWK 241
           E K+   L          L   ++   + ++   +   I   +RFV   E   +      
Sbjct: 2   ERKRQESLIQSMFMPREILR--ASLSDVDLNDDGRIKAIRFAERFVAEYEPGKK-----M 54

Query: 242 RGYLLYGPPGTGKSSLIAAMANYLK--------FDIYDM--ELASLRSNSDLRRLLVSTG 291
           +G  L+G  G GK+ L+AA+AN L           + ++  EL     +  +   L    
Sbjct: 55  KGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKLDYIK 114

Query: 292 NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY 351
              +L+++D+             G  E  S      +   +  L     +     FT+N+
Sbjct: 115 KVPVLMLDDL-------------GA-EAMSSWVRDDVFGPI--LQYRMFENLPTFFTSNF 158

>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* Length = 355

 Score = 47.9 bits (114), Expect = 3e-06
 Identities = 42/153 (27%), Positives = 68/153 (44%), Gaps = 19/153 (12%)

Query: 227 VKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---FDIYDMELASL---RSN 280
           VK    +    K    G LLYGPPGTGKS L  A+A       F +   +L S     S 
Sbjct: 71  VKFPHLFKGNRKPTS-GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESE 129

Query: 281 SDLRRL--LVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS 338
             +++L  +      SI+ I+ +D ++    R   G  +   S+   + LL  ++G+   
Sbjct: 130 KLVKQLFAMARENKPSIIFIDQVD-AL-TGTR---GEGESEASRRIKTELLVQMNGV--G 182

Query: 339 CGDERIIVFT-TNYKERLDPALLRPGRMDMHIH 370
              + ++V   TN   +LD A+ R  R +  I+
Sbjct: 183 NDSQGVLVLGATNIPWQLDSAIRR--RFERRIY 213

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score = 46.8 bits (112), Expect = 6e-06
 Identities = 16/49 (32%), Positives = 26/49 (53%)

Query: 215 LKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMAN 263
           +++ L   +   V+  + +  +G     G LL GPPG GK+ L  A+AN
Sbjct: 18  IREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVAN 66

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score = 41.0 bits (97), Expect = 5e-04
 Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 11/60 (18%)

Query: 317 DENNSQVT---LSGLLNFVDGLWSSCGDERIIVF---TTNYKERLDPALLRPGRMDMHIH 370
            +  +  +   ++ LL  +DGL     + R  VF    TN  + +DPA+LRPGR+D  + 
Sbjct: 120 SDRETGASVRVVNQLLTEMDGL-----EARQQVFIMAATNRPDIIDPAILRPGRLDKTLF 174

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3} Length = 308

 Score = 46.8 bits (111), Expect = 6e-06
 Identities = 33/193 (17%), Positives = 68/193 (35%), Gaps = 45/193 (23%)

Query: 175 ERSKAIKETKKVIKLYSLCAADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYS 234
           +     ++   + +   L +              + ++   +      +  FV++     
Sbjct: 94  KELVEAQKQAAISERIQLVSLPKSYRH--IHLSDIDVNNASRMEAFSAILDFVEQYP--- 148

Query: 235 RVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----------YLKFDIYDMELASLRSNSDL 283
               A ++G  LYG  G GKS L+AAMA+            L F  + +++ +  SN  +
Sbjct: 149 ---SAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAISNGSV 205

Query: 284 RRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER 343
           +  + +  N  +L+++DI             G  E  +      +L  +          R
Sbjct: 206 KEEIDAVKNVPVLILDDI-------------GA-EQATSWVRDEVLQVIL-------QYR 244

Query: 344 I-----IVFTTNY 351
           +       FT+NY
Sbjct: 245 MLEELPTFFTSNY 257

>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* Length = 180

 Score = 43.9 bits (104), Expect = 2e-05
 Identities = 27/133 (20%), Positives = 44/133 (33%), Gaps = 28/133 (21%)

Query: 230 REFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---------FDIYDM--ELASLR 278
           R F         +G    G PG GK+ L  A    +          FD  D+   L  L 
Sbjct: 27  RVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRLKHLM 86

Query: 279 SNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS 338
                 + L +  N  +LV++D+             G  E  S      +   +   +++
Sbjct: 87  DEGKDTKFLKTVLNSPVLVLDDL-------------GS-ERLSDWQRELISYIITYRYNN 132

Query: 339 CGDERIIVFTTNY 351
               +  + TTNY
Sbjct: 133 ---LKSTIITTNY 142

>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 Length = 357

 Score = 44.3 bits (104), Expect = 4e-05
 Identities = 26/135 (19%), Positives = 47/135 (34%), Gaps = 7/135 (5%)

Query: 220 IDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLKFDIYDMEL 274
            D+   F  R +   ++        L+ G   TGKSS+I    N     Y+  D+   E 
Sbjct: 9   KDNRKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEE 68

Query: 275 ASLRSNSDLRRLLVSTGNRSILVIEDIDCSIE--LENRQCGGGYDENNSQVTLSGLLNFV 332
            +  S  D    L    N+ +  +  +  +++        G     N ++       N +
Sbjct: 69  RNYISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLL 128

Query: 333 DGLWSSCGDERIIVF 347
           +    +  D  IIV 
Sbjct: 129 ESFEQASKDNVIIVL 143

>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} Length = 226

 Score = 41.4 bits (98), Expect = 2e-04
 Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 17/78 (21%)

Query: 203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMA 262
           P T D    + V +  +I  L  +V+R+              L  GPPGTGK++   A+A
Sbjct: 13  PRTLD----EVVGQDEVIQRLKGYVERKNIPH---------LLFSGPPGTGKTATAIALA 59

Query: 263 NYLKFDIYD---MEL-AS 276
             L  + +    +E+ AS
Sbjct: 60  RDLFGENWRDNFIEMNAS 77

>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 Length = 319

 Score = 40.4 bits (95), Expect = 8e-04
 Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 4/36 (11%)

Query: 245 LLYGPPGTGKSSLIAAMANYLKFDIYD---MEL-AS 276
           L  GPPGTGK++   A+A  L  + +    +E+ AS
Sbjct: 42  LFSGPPGTGKTATAIALARDLFGENWRDNFIEMNAS 77

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	455
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	100.0
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	100.0
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	100.0
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	100.0
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	100.0
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	100.0
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.97
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.97
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.96
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.95
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.95
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.95
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.95
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.95
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.95
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.94
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.94
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.93
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.93
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.92
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.92
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.92
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.91
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.91
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.91
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.91
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.89
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.88
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.86
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.81
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.79
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.77
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.77
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.76
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.72
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.72
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.71
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.7
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.7
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.69
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.68
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.68
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.67
3bos_A	242	Putative DNA replication factor; P-loop containing	99.66
3pvs_A	447	Replication-associated recombination protein A; ma	99.66
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.66
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.65
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.65
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.63
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.63
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.62
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.62
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.62
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.62
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.62
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.61
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.61
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.6
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.59
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.59
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.58
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.57
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.56
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.56
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.56
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.54
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.54
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.54
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.54
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.53
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.53
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.52
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.52
3co5_A	143	Putative two-component system transcriptional RES	99.42
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.42
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.41
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.38
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.37
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.37
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.34
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.34
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.33
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.32
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	99.22
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.2
2qgz_A	308	Helicase loader, putative primosome component; str	99.1
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	99.09
1tue_A	212	Replication protein E1; helicase, replication, E1E	99.08
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.01
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	98.98
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.93
2fna_A	357	Conserved hypothetical protein; structural genomic	98.92
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.86
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.83
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.82
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.82
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.75
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.73
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.62
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.59
3f8t_A	506	Predicted ATPase involved in replication control,	98.58
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.43
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	98.41
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.14
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	98.06
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.92
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.88
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.81
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.79
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.78
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	97.7
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.68
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.68
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.67
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.65
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.64
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.64
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.62
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	97.62
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.62
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.61
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.59
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.59
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.58
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.54
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.53
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.53
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.51
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.49
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.47
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.45
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.45
1via_A	175	Shikimate kinase; structural genomics, transferase	97.44
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.43
3io5_A	333	Recombination and repair protein; storage dimer, i	97.42
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.41
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.4
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.39
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.35
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.34
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.32
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.32
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.29
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.28
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.28
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.27
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.26
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.24
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.24
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.23
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.22
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.21
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.21
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.2
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.19
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.18
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.18
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.18
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.17
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.17
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.16
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.15
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.15
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.14
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.13
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.12
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.12
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	97.11
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	97.1
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.08
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.06
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.05
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.01
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.0
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.99
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.98
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.95
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.93
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.91
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.9
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.9
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.89
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.89
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.88
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.88
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.88
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	96.87
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.86
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.85
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.84
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.84
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.82
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.79
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.79
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.78
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	96.77
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.77
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.77
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.76
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.73
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.71
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.66
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.66
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.65
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.62
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	96.59
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	96.58
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.55
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	96.55
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.53
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	96.52
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.52
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.52
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.49
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.48
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.46
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.43
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.43
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.43
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.4
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.4
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.39
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.37
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	96.36
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.34
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.34
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	96.32
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	96.31
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.31
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.3
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.3
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.27
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	96.25
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.22
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.21
1nrj_B	218	SR-beta, signal recognition particle receptor beta	96.2
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.19
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.18
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.17
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	96.13
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	96.13
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	96.12
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.12
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.1
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	96.09
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.08
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	96.06
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	96.05
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	96.04
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.03
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	96.02
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	96.01
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	96.01
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.99
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.99
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.98
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.98
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	95.97
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	95.97
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.96
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.93
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.93
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.93
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.91
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.9
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.9
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.89
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.87
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.86
2og2_A	359	Putative signal recognition particle receptor; nuc	95.85
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.84
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	95.84
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.83
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	95.82
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.81
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.8
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.8
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	95.79
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.77
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.77
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.72
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.72
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	95.72
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	95.71
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.69
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.69
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.68
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.66
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.65
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	95.64
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.63
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.63
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	95.6
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	95.6
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.59
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.59
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.58
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	95.54
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.52
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.51
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.48
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	95.46
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	95.46
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.46
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.43
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	95.41
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	95.41
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	95.39
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.39
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.36
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	95.33
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.33
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.33
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.33
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.32
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	95.32
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	95.31
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	95.29
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	95.27
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	95.25
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.23
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.23
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	95.21
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.19
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.18
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.16
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.15
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.15
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.14
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	95.14
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	95.1
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	95.09
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	95.08
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	95.07
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.06
3ice_A	422	Transcription termination factor RHO; transcriptio	95.06
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	95.04
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.04
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	95.0
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	95.0
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	94.98
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	94.98
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	94.97
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	94.92
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.91
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	94.91
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	94.91
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.87
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	94.87
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.85
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	94.81
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.8
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.8
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	94.8
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	94.79
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	94.79
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.78
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.78
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	94.77
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.77
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	94.74
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.7
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	94.69
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.67
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	94.66
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	94.66
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	94.65
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	94.64
2xxa_A	433	Signal recognition particle protein; protein trans	94.63
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.61
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.59
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.53
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.53
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.52
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.5
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	94.46
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.46
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	94.46
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.45
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.41
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.39
2fh5_B	214	SR-beta, signal recognition particle receptor beta	94.39
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.39
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.36
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.35
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.34
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.33
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.32
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	94.32
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	94.31
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.24
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.2
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	94.18
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.18
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.18
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	94.17
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	94.12
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	94.11
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.09
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.06
3llu_A	196	RAS-related GTP-binding protein C; structural geno	94.04
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.04
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.04
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	94.04
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.03
1g6h_A	257	High-affinity branched-chain amino acid transport	94.02
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.0
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.97
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	93.91
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.91
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.88
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.86
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.85
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	93.84
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.82
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.81
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.8
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.79
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	93.79
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	93.77
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	93.77
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.71
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.7
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.68
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	93.67
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.67
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	93.66
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.65
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.63
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	93.63
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.63
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	93.62
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.61
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	93.6
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.59
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.57
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.57
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	93.56
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.56
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.55
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.48
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	93.48
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	93.44
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	93.42
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	93.41
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	93.4
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.38
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	93.37
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.35
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.34
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	93.31
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.26
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.25
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	93.18
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.16
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	93.13
2zpa_A	671	Uncharacterized protein YPFI; RNA modification enz	93.12
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	93.12
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	93.11
3l0o_A	427	Transcription termination factor RHO; helicase, RH	93.1
2hf9_A	226	Probable hydrogenase nickel incorporation protein	93.08
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.08
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	93.07
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	93.02
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	92.96
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	92.95
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	92.93
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	92.92
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	92.89
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.88
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.88
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	92.86
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	92.84
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	92.82
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	92.75
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	92.7
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	92.69
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	92.68
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	92.67
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	92.65
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.62
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.62
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.58
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.58
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	92.56
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	92.56
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.54
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	92.52
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	92.51
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	92.51
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	92.4
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	92.35
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	92.32
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	92.25
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	92.25
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	92.24
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	92.24
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	92.15
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	92.11

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=9.7e-40  Score=333.48  Aligned_cols=185  Identities=30%  Similarity=0.397  Sum_probs=163.7

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC---
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR---  278 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~---  278 (455)
                      +..+|++|+|.+++|++|.+.+..++.+|+.|.++|+++|+|+|||||||||||++|+|+|++++.+++.++++++.   
T Consensus       143 p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~sk~  222 (405)
T 4b4t_J          143 PDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKY  222 (405)
T ss_dssp             CSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGSCSS
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhhccc
Confidence            45799999999999999999999999999999999999999999999999999999999999999999999998873   


Q ss_pred             ---ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          279 ---SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       279 ---~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                         +...++.+|..+  ..||||||||||+++.  .+....++.+.....++++||+.|||+...  .+++||+|||+|+
T Consensus       223 vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~--~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~--~~V~vIaATNrpd  298 (405)
T 4b4t_J          223 IGEGSRMVRELFVMAREHAPSIIFMDEIDSIGS--TRVEGSGGGDSEVQRTMLELLNQLDGFETS--KNIKIIMATNRLD  298 (405)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTT--SCSCSSSGGGGHHHHHHHHHHHHHHTTTCC--CCEEEEEEESCSS
T ss_pred             cchHHHHHHHHHHHHHHhCCceEeeecchhhcc--CCCCCCCCCcHHHHHHHHHHHHhhhccCCC--CCeEEEeccCChh
Confidence               356788888655  5799999999999975  332233333345567899999999999765  6799999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      .||||++||||||.+|+++.|+.++|.+|++.++...
T Consensus       299 ~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~  335 (405)
T 4b4t_J          299 ILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKM  335 (405)
T ss_dssp             SSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTS
T ss_pred             hCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCC
Confidence            9999999999999999999999999999999998754

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=2.9e-39  Score=331.01  Aligned_cols=186  Identities=26%  Similarity=0.318  Sum_probs=164.2

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      .+..+|++|+|.+++|++|.+.+..++.+|++|.++|++||+|||||||||||||++|+|+|++++.+++.++.+++.  
T Consensus       176 ~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~sk  255 (437)
T 4b4t_I          176 SPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQK  255 (437)
T ss_dssp             SCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGCCS
T ss_pred             CCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhhhc
Confidence            456799999999999999999999999999999999999999999999999999999999999999999999998873  


Q ss_pred             ----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          +...++.+|..+  ..||||||||||+++.  .|.......+.....++++||+.|||....  ++++||+|||++
T Consensus       256 ~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~--~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~--~~ViVIaATNrp  331 (437)
T 4b4t_I          256 YLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGT--KRYDSNSGGEREIQRTMLELLNQLDGFDDR--GDVKVIMATNKI  331 (437)
T ss_dssp             SSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSC--CCSCSSCSSCCHHHHHHHHHHHHHHHCCCS--SSEEEEEEESCS
T ss_pred             cCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcc--cCCCCCCCccHHHHHHHHHHHHHhhCcCCC--CCEEEEEeCCCh
Confidence                346678888554  5799999999999876  333333333445677899999999998654  679999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      +.|||||+||||||.+|+|++|+.++|++|++.++...
T Consensus       332 d~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~  369 (437)
T 4b4t_I          332 ETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKM  369 (437)
T ss_dssp             TTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTS
T ss_pred             hhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999998754

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.6e-38  Score=328.94  Aligned_cols=186  Identities=27%  Similarity=0.367  Sum_probs=163.4

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      .+..+|++|+|.+++|++|.+.+..++.+|+.|.++|++||+|+|||||||||||++|+|+|++++.+++.++++++.  
T Consensus       175 ~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~sk  254 (437)
T 4b4t_L          175 QGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDK  254 (437)
T ss_dssp             SCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCCS
T ss_pred             CCCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhccc
Confidence            455799999999999999999999999999999999999999999999999999999999999999999999998874  


Q ss_pred             ----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          +...++.+|..+  ..||||||||||+++.  .|.......+.....++++||+.|||+.+.  ++++||+|||+|
T Consensus       255 ~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~--~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~--~~vivI~ATNrp  330 (437)
T 4b4t_L          255 YIGESARIIREMFAYAKEHEPCIIFMDEVDAIGG--RRFSEGTSADREIQRTLMELLTQMDGFDNL--GQTKIIMATNRP  330 (437)
T ss_dssp             SSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSC--CCSSSCCSSTTHHHHHHHHHHHHHHSSSCT--TSSEEEEEESST
T ss_pred             cchHHHHHHHHHHHHHHhcCCceeeeeccccccc--ccccCCCCcchHHHHHHHHHHHHhhcccCC--CCeEEEEecCCc
Confidence                345677777554  5799999999999875  332233333445567899999999999765  679999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      +.|||||+||||||.+|+|++|+.++|.+|++.++...
T Consensus       331 ~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~  368 (437)
T 4b4t_L          331 DTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKV  368 (437)
T ss_dssp             TSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTS
T ss_pred             hhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999998754

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.3e-38  Score=329.36  Aligned_cols=204  Identities=24%  Similarity=0.308  Sum_probs=169.9

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      .++.+|++|+|.+++|++|.+.+..|+.+|+.|.++|+++|+|||||||||||||++|+|+|++++.+++.++++++.  
T Consensus       175 ~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~~~  254 (434)
T 4b4t_M          175 KPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQM  254 (434)
T ss_dssp             SCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCSS
T ss_pred             CCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhhhc
Confidence            556799999999999999999999999999999999999999999999999999999999999999999999998873  


Q ss_pred             ----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          +...++.+|..+  ..||||||||||+++..  |.............++++||+.|||+.+.  ++++||+|||+|
T Consensus       255 ~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~--R~~~~~~~~~~~~~~~~~lL~~ldg~~~~--~~ViVIaaTNrp  330 (434)
T 4b4t_M          255 YIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTK--RFDSEKSGDREVQRTMLELLNQLDGFSSD--DRVKVLAATNRV  330 (434)
T ss_dssp             CSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCC--CSSGGGGTTHHHHHHHHHHHHHHTTSCSS--CSSEEEEECSSC
T ss_pred             ccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhc--cCCCCCCCchHHHHHHHHHHHHhhccCCC--CCEEEEEeCCCc
Confidence                346678888654  47999999999998752  22222222334567889999999999765  679999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccC---CCchHHHHHhhccccCchh
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKS---HSMFDEIEELIKEVEVTPA  410 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~---~~l~~ei~~ll~~~~~tpa  410 (455)
                      +.|||||+||||||.+|+|++|+.++|.+|++.++....   ....+++++...+  ++.|
T Consensus       331 ~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t~G--~sGA  389 (434)
T 4b4t_M          331 DVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARSTDE--FNGA  389 (434)
T ss_dssp             CCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCCHHHHHHHCSS--CCHH
T ss_pred             hhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCC--CCHH
Confidence            999999999999999999999999999999999987542   2223444444433  4555

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=3.3e-38  Score=326.03  Aligned_cols=186  Identities=26%  Similarity=0.376  Sum_probs=163.8

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      .+..+|++++|.+++|++|.+.+..|+.+|++|.++|++||+|+|||||||||||++|+|+|++++.+++.++++++.  
T Consensus       166 ~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~~~  245 (428)
T 4b4t_K          166 KPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHK  245 (428)
T ss_dssp             SCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTCCS
T ss_pred             CCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhhcc
Confidence            345699999999999999999999999999999999999999999999999999999999999999999999998863  


Q ss_pred             ----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          +...++.+|..+  ..||||||||+|+++.  .|.......+.....++++||+.|||+.+.  .+++||+|||++
T Consensus       246 ~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~--~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~--~~v~vI~aTN~~  321 (428)
T 4b4t_K          246 YLGEGPRMVRDVFRLARENAPSIIFIDEVDSIAT--KRFDAQTGSDREVQRILIELLTQMDGFDQS--TNVKVIMATNRA  321 (428)
T ss_dssp             SCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHC--SCSSSCSCCCCHHHHHHHHHHHHHHHSCSS--CSEEEEEEESCS
T ss_pred             ccchhHHHHHHHHHHHHHcCCCeeechhhhhhhc--cccCCCCCCChHHHHHHHHHHHHhhCCCCC--CCEEEEEecCCh
Confidence                346788888655  5799999999999876  333333333445678899999999999775  569999999999


Q ss_pred             CCCCccccCCCceeEEEEeC-CCCHHHHHHHHHHhhccc
Q 047029          353 ERLDPALLRPGRMDMHIHMS-YLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~-~p~~~~~~~L~~~~l~~~  390 (455)
                      +.|||||+||||||.+|+|| +|+.++|..|++.++...
T Consensus       322 ~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~  360 (428)
T 4b4t_K          322 DTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKM  360 (428)
T ss_dssp             SSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSS
T ss_pred             hhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence            99999999999999999996 899999999999998654

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=3.2e-38  Score=326.13  Aligned_cols=186  Identities=26%  Similarity=0.317  Sum_probs=163.2

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      .+..+|++|+|.+++|++|.+.+..++.+|+.|.++|+++|+|+|||||||||||++|+|+|++++.+++.++++.+.  
T Consensus       203 ~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~sk  282 (467)
T 4b4t_H          203 KPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQK  282 (467)
T ss_dssp             SCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCCC
T ss_pred             CCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhcc
Confidence            445799999999999999999999999999999999999999999999999999999999999999999999998874  


Q ss_pred             ----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          +...++.+|..+  ..||||||||+|.++.  .|.....+.......+++.+|+.|||....  ++++||+|||++
T Consensus       283 ~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~--~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~--~~ViVIaATNrp  358 (467)
T 4b4t_H          283 YVGEGARMVRELFEMARTKKACIIFFDEIDAVGG--ARFDDGAGGDNEVQRTMLELITQLDGFDPR--GNIKVMFATNRP  358 (467)
T ss_dssp             SSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSB--CCSSSSCGGGGHHHHHHHHHHHHHHSSCCT--TTEEEEEECSCT
T ss_pred             cCCHHHHHHHHHHHHHHhcCCceEeecccccccc--cccCcCCCccHHHHHHHHHHHHHhhccCCC--CcEEEEeCCCCc
Confidence                346788888654  5799999999999875  332222323344567889999999998665  679999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      +.|||||+||||||.+|+|+.|+.++|.+|++.++...
T Consensus       359 d~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~  396 (467)
T 4b4t_H          359 NTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSM  396 (467)
T ss_dssp             TSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTS
T ss_pred             ccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999998754

>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=99.97  E-value=5.8e-33  Score=305.66  Aligned_cols=185  Identities=22%  Similarity=0.357  Sum_probs=152.4

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc----
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL----  277 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~----  277 (455)
                      +..+|++++|.+++|++|.+.+..++.+|+.|.+.|..+++|+|||||||||||++|+|+|++++.+++.++.+++    
T Consensus       472 p~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~  551 (806)
T 3cf2_A          472 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMW  551 (806)
T ss_dssp             CCCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTT
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhccc
Confidence            3468999999999999999999999999999999999999999999999999999999999999999999988765    


Q ss_pred             --CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          278 --RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       278 --~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                        .++..++++|..+  ..||||||||||+++..+.  ...+........++++||+.|||+.+.  .+++||+|||+|+
T Consensus       552 vGese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~--~~~~~~~~~~~rv~~~lL~~mdg~~~~--~~V~vi~aTN~p~  627 (806)
T 3cf2_A          552 FGESEANVREIFDKARQAAPCVLFFDELDSIAKARG--GNIGDGGGAADRVINQILTEMDGMSTK--KNVFIIGATNRPD  627 (806)
T ss_dssp             CSSCHHHHHHHHHHHHTTCSEEEECSCGGGCC----------------CHHHHHHHHHHHSSCSS--SSEEEECC-CCSS
T ss_pred             cchHHHHHHHHHHHHHHcCCceeechhhhHHhhccC--CCCCCCchHHHHHHHHHHHHHhCCCCC--CCEEEEEeCCCch
Confidence              4678899999776  4699999999999986332  222223345668899999999999765  5699999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      .||||++||||||.+|++++|+.++|.+|++.++...
T Consensus       628 ~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~  664 (806)
T 3cf2_A          628 IIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS  664 (806)
T ss_dssp             SSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC
T ss_pred             hCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCC
Confidence            9999999999999999999999999999999998754

>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=99.97  E-value=2.4e-31  Score=292.81  Aligned_cols=181  Identities=24%  Similarity=0.324  Sum_probs=160.4

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC----
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR----  278 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~----  278 (455)
                      ..+|++|+|.+++|++|.+.+..++.+|+.|.++|+.+|+|+|||||||||||+||+++|++++.+++.++++++.    
T Consensus       200 ~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~~  279 (806)
T 3cf2_A          200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  279 (806)
T ss_dssp             SCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSCT
T ss_pred             CCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcccc
Confidence            4589999999999999999999999999999999999999999999999999999999999999999999987752    


Q ss_pred             --ChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC
Q 047029          279 --SNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER  354 (455)
Q Consensus       279 --~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~  354 (455)
                        +...++.+|..+.  .||||||||||.+++.+.  ..   ........+++||..|||+.+.  .+++||+|||+++.
T Consensus       280 gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~--~~---~~~~~~riv~~LL~~mdg~~~~--~~V~VIaaTN~~d~  352 (806)
T 3cf2_A          280 GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKRE--KT---HGEVERRIVSQLLTLMDGLKQR--AHVIVMAATNRPNS  352 (806)
T ss_dssp             THHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTT--TC---CCTTHHHHHHHHHTHHHHCCGG--GCEEEEEECSSTTT
T ss_pred             hHHHHHHHHHHHHHHHcCCeEEEEehhcccccccC--CC---CChHHHHHHHHHHHHHhccccc--CCEEEEEecCChhh
Confidence              3567888887664  699999999999976321  11   2234567889999999999775  56999999999999


Q ss_pred             CCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          355 LDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       355 Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      |||||+||||||.+|+++.|+.++|.+|++.++...
T Consensus       353 LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~  388 (806)
T 3cf2_A          353 IDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNM  388 (806)
T ss_dssp             SCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSS
T ss_pred             cCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCC
Confidence            999999999999999999999999999999998754

>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=99.96  E-value=1.1e-28  Score=244.56  Aligned_cols=186  Identities=22%  Similarity=0.351  Sum_probs=157.8

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc---
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL---  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~---  277 (455)
                      .++.+|++++|.+++|++|.+.+..++.+++.|..+|..+++|+|||||||||||++|+++|++++.+++.++++.+   
T Consensus         9 ~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~~   88 (301)
T 3cf0_A            9 VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTM   88 (301)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHHH
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHhh
Confidence            34578999999999999999999999999999999999999999999999999999999999999999999988765   


Q ss_pred             ---CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          278 ---RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       278 ---~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                         .....++.+|...  ..|+||||||||.+...+..  ............++.||..||++...  .+++||+|||++
T Consensus        89 ~~g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~--~~~~~~~~~~~~~~~lL~~l~~~~~~--~~v~vi~atn~~  164 (301)
T 3cf0_A           89 WFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGG--NIGDGGGAADRVINQILTEMDGMSTK--KNVFIIGATNRP  164 (301)
T ss_dssp             HHTTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTT--TTCCSSCSCCHHHHHHHHHHHSSCTT--SSEEEEEEESCG
T ss_pred             hcCchHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCC--CcCCcchHHHHHHHHHHHHhhcccCC--CCEEEEEecCCc
Confidence               2345677777654  46899999999998763322  11112233456778899999987543  569999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      +.||++++|||||+..|+++.|+.++|.+|++.++...
T Consensus       165 ~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~  202 (301)
T 3cf0_A          165 DIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS  202 (301)
T ss_dssp             GGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS
T ss_pred             cccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccC
Confidence            99999999999999999999999999999999998654

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.95  E-value=3.6e-27  Score=236.08  Aligned_cols=182  Identities=23%  Similarity=0.275  Sum_probs=151.4

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-CCcEEEEeccccC--
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-KFDIYDMELASLR--  278 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-~~~v~~l~~~~~~--  278 (455)
                      ++.+|++|+|.+++|+.|.+.+..++..++.|.. +..+++|+|||||||||||++|+++|+++ +.+++.++++.+.  
T Consensus         7 ~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~~   85 (322)
T 1xwi_A            7 PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSK   85 (322)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCT-TCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCCS
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhC-CCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHhh
Confidence            4568999999999999999999999999998875 35677999999999999999999999999 8999999987753  


Q ss_pred             ----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          +...++.+|...  .+++||||||||.+...  +...   ........+++++..||++... ..+++||+|||++
T Consensus        86 ~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~--~~~~---~~~~~~~~~~~ll~~ld~~~~~-~~~v~vI~atn~~  159 (322)
T 1xwi_A           86 WLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGS--RSEN---ESEAARRIKTEFLVQMQGVGVD-NDGILVLGATNIP  159 (322)
T ss_dssp             SCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCC--SSSC---CTTHHHHHHHHHHHHHHCSSSC-CTTEEEEEEESCT
T ss_pred             hhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccc--cccc---cchHHHHHHHHHHHHHhccccc-CCCEEEEEecCCc
Confidence                345677777544  57899999999998652  1111   1233456778999999998532 3679999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCC
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSH  392 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~  392 (455)
                      +.+|++++|  ||+..|+++.|+.++|..+++.++.....
T Consensus       160 ~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~  197 (322)
T 1xwi_A          160 WVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQN  197 (322)
T ss_dssp             TTSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTCCB
T ss_pred             ccCCHHHHh--hcCeEEEeCCcCHHHHHHHHHHHHhcCCC
Confidence            999999999  99999999999999999999999875543

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.95  E-value=5.2e-27  Score=229.79  Aligned_cols=181  Identities=22%  Similarity=0.347  Sum_probs=146.2

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC--
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS--  279 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~--  279 (455)
                      +..+|++++|.+++|++|.+.+..++.+++.|+.+|...++|++|+||||||||+|++++|+.++.+++.++...+.+  
T Consensus         5 ~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~~~   84 (274)
T 2x8a_A            5 PNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMY   84 (274)
T ss_dssp             -------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCSST
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHhhh
Confidence            346899999999999999999999999999999999999999999999999999999999999999999998877632  


Q ss_pred             ----hHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          280 ----NSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       280 ----~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                          ...+..+|...  ..|+|+|+||+|.+...+...     ........++.++..|||....  ..++++++||+|+
T Consensus        85 ~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~-----~~~~~~~~~~~~l~~Lsgg~~~--~~~i~ia~tn~p~  157 (274)
T 2x8a_A           85 VGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDR-----ETGASVRVVNQLLTEMDGLEAR--QQVFIMAATNRPD  157 (274)
T ss_dssp             THHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC--------------CTTHHHHHHHHHHTCCST--TCEEEEEEESCGG
T ss_pred             hhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCC-----cchHHHHHHHHHHHhhhccccc--CCEEEEeecCChh
Confidence                24566677653  468999999999876422111     1112345678899999998554  5588999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      .||||++||||||.+|++++|+.++|.+|++.++..
T Consensus       158 ~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~~  193 (274)
T 2x8a_A          158 IIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKN  193 (274)
T ss_dssp             GSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTTT
T ss_pred             hCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999853

>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=99.95  E-value=7.9e-27  Score=224.67  Aligned_cols=186  Identities=27%  Similarity=0.385  Sum_probs=139.4

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC---
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS---  279 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~---  279 (455)
                      +.+|++++|.+++|+.|.+.+. ++..++.|...|...++++|||||||||||++|+++|++++.+++.++++.+.+   
T Consensus         2 ~~~~~~i~G~~~~~~~l~~~~~-~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~   80 (262)
T 2qz4_A            2 GVSFKDVAGMHEAKLEVREFVD-YLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIG   80 (262)
T ss_dssp             CCCTTSSCSCHHHHHHHHHHHH-HHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSST
T ss_pred             CCCHHHhCCHHHHHHHHHHHHH-HHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhcc
Confidence            4689999999999999988765 588889999999999999999999999999999999999999999999887632   


Q ss_pred             ---hHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC
Q 047029          280 ---NSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER  354 (455)
Q Consensus       280 ---~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~  354 (455)
                         ...++.+|...  ..++||||||+|.+...+.... ...........+..+++.+++....  .++++|+|||.++.
T Consensus        81 ~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~-~~~~~~~~~~~l~~ll~~~~~~~~~--~~~~vi~~tn~~~~  157 (262)
T 2qz4_A           81 GLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTM-SGFSNTEEEQTLNQLLVEMDGMGTT--DHVIVLASTNRADI  157 (262)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEECC--------------------CHHHHHHHHHHHTCCTT--CCEEEEEEESCGGG
T ss_pred             ChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccc-cCccchhHHHHHHHHHHHhhCcCCC--CCEEEEecCCChhh
Confidence               24556666544  3589999999999865221110 0011233456788899999987443  57899999999999


Q ss_pred             CCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCC
Q 047029          355 LDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSH  392 (455)
Q Consensus       355 Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~  392 (455)
                      +|++++|+|||+..++++.|+.++|.++++.++.....
T Consensus       158 ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~  195 (262)
T 2qz4_A          158 LDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKL  195 (262)
T ss_dssp             GGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTC
T ss_pred             cCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999876443

>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=99.95  E-value=4e-27  Score=246.72  Aligned_cols=184  Identities=29%  Similarity=0.403  Sum_probs=152.7

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC---
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR---  278 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~---  278 (455)
                      ...+|++++|.++.|+++.+.+. ++..+..|.++|...++|+||+||||||||++++++|++++.+++.++++++.   
T Consensus        11 ~~~~f~di~G~~~~~~~l~e~v~-~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~   89 (476)
T 2ce7_A           11 KRVTFKDVGGAEEAIEELKEVVE-FLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELF   89 (476)
T ss_dssp             CCCCGGGCCSCHHHHHHHHHHHH-HHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCC
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHH-HhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHH
Confidence            34689999999999999988775 67889999999999999999999999999999999999999999999988763   


Q ss_pred             ---ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          279 ---SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       279 ---~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                         +...++.+|...  ..|+||||||||.+...  +.....+.+.....++++||..||++...  .+++||+|||+++
T Consensus        90 ~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~--r~~~~~g~~~~~~~~l~~LL~~ld~~~~~--~~viVIaaTn~~~  165 (476)
T 2ce7_A           90 VGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRH--RGAGLGGGHDEREQTLNQLLVEMDGFDSK--EGIIVMAATNRPD  165 (476)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC-----------CHHHHHHHHHHHHHHHSCGG--GTEEEEEEESCGG
T ss_pred             hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhh--cccccCcCcHHHHHHHHHHHHHHhccCCC--CCEEEEEecCChh
Confidence               235567777654  47999999999998642  21111222344557889999999987553  5699999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      .||++++||||||..|.++.|+.++|.+|++.++...
T Consensus       166 ~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~  202 (476)
T 2ce7_A          166 ILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNK  202 (476)
T ss_dssp             GSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS
T ss_pred             hhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999999999999999888653

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.95  E-value=1.9e-26  Score=225.40  Aligned_cols=187  Identities=26%  Similarity=0.305  Sum_probs=155.9

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS  279 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~  279 (455)
                      ..++.+|++++|.++++++|.+.+..++..++.|..+|...++++|||||||||||++|+++|+.++.+++.+++..+..
T Consensus        10 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~   89 (285)
T 3h4m_A           10 ERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVK   89 (285)
T ss_dssp             SSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCC
T ss_pred             CCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHH
Confidence            34567899999999999999999999999999999999999999999999999999999999999999999999887632


Q ss_pred             ------hHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCC
Q 047029          280 ------NSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY  351 (455)
Q Consensus       280 ------~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~  351 (455)
                            ...+..++...  ..|+||||||+|.+..  .+...........+..+..+++.+++....  .+++||+|||.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~--~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~--~~~~vI~ttn~  165 (285)
T 3h4m_A           90 KFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAA--KRTDALTGGDREVQRTLMQLLAEMDGFDAR--GDVKIIGATNR  165 (285)
T ss_dssp             CSTTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHB--CCSSSCCGGGGHHHHHHHHHHHHHHTTCSS--SSEEEEEECSC
T ss_pred             hccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcc--cCccccCCccHHHHHHHHHHHHHhhCCCCC--CCEEEEEeCCC
Confidence                  23455555433  4679999999999864  222222222334456778888888877543  56999999999


Q ss_pred             CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          352 KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       352 ~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      ++.+|++++|+|||+..++++.|+.+++.++++.++...
T Consensus       166 ~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~  204 (285)
T 3h4m_A          166 PDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKM  204 (285)
T ss_dssp             GGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTS
T ss_pred             chhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999998754

>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=99.95  E-value=4.9e-27  Score=234.78  Aligned_cols=184  Identities=22%  Similarity=0.246  Sum_probs=151.1

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC-
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR-  278 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~-  278 (455)
                      -.++.+|++++|.+++|+.|.+.+..++..++.|.. +..+++|+|||||||||||++|+++|++++.+++.++++.+. 
T Consensus        11 ~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~-~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~   89 (322)
T 3eie_A           11 EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVS   89 (322)
T ss_dssp             ECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCT-TCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHT
T ss_pred             cCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhc-CCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhh
Confidence            355678999999999999999999999999988887 556678999999999999999999999999999999987652 


Q ss_pred             -----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCC
Q 047029          279 -----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY  351 (455)
Q Consensus       279 -----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~  351 (455)
                           ....++.+|...  ..++||||||||.+...+.  .   ............++..+|++... ..+++||+|||+
T Consensus        90 ~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~--~---~~~~~~~~~~~~ll~~l~~~~~~-~~~v~vi~atn~  163 (322)
T 3eie_A           90 KWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRG--E---GESEASRRIKTELLVQMNGVGND-SQGVLVLGATNI  163 (322)
T ss_dssp             TTGGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC-----------CCTHHHHHHHHHHHGGGGTS-CCCEEEEEEESC
T ss_pred             cccchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCC--C---CcchHHHHHHHHHHHHhcccccc-CCceEEEEecCC
Confidence                 234566666443  4689999999999865221  1   11233456778899999988543 357899999999


Q ss_pred             CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCC
Q 047029          352 KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSH  392 (455)
Q Consensus       352 ~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~  392 (455)
                      ++.||++++|  ||+..|+++.|+.++|.+|++.++.....
T Consensus       164 ~~~ld~al~~--Rf~~~i~~~~p~~~~r~~il~~~~~~~~~  202 (322)
T 3eie_A          164 PWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPC  202 (322)
T ss_dssp             GGGSCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHTTCCC
T ss_pred             hhhCCHHHHc--ccCeEEEeCCCCHHHHHHHHHHHhccCCC
Confidence            9999999999  99999999999999999999999876543

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.94  E-value=7.6e-26  Score=218.29  Aligned_cols=184  Identities=26%  Similarity=0.413  Sum_probs=147.4

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      ..+.+|++++|.+++|+++.+.+. ++..++.|+++|...++|+||+||||||||++++++|+.++.+++.++++.+.  
T Consensus         6 ~~~~~~~~i~G~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~~   84 (257)
T 1lv7_A            6 QIKTTFADVAGCDEAKEEVAELVE-YLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEM   84 (257)
T ss_dssp             SSCCCGGGSCSCHHHHHHTHHHHH-HHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTS
T ss_pred             CCCCCHHHhcCcHHHHHHHHHHHH-HHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHHH
Confidence            456799999999999999988665 68888899999999999999999999999999999999999999999987753  


Q ss_pred             ----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          ....++.+|...  ..++++||||+|.+...  +..............+..++..+|+....  .+++||+|||++
T Consensus        85 ~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~--~~~~~~~~~~~~~~~~~~ll~~l~~~~~~--~~~~vI~~tn~~  160 (257)
T 1lv7_A           85 FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQ--RGAGLGGGHDEREQTLNQMLVEMDGFEGN--EGIIVIAATNRP  160 (257)
T ss_dssp             CCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCC--CSTTSCCTTCHHHHHHHHHHHHHHTCCSS--SCEEEEEEESCT
T ss_pred             hhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccC--CCCCcCCCchHHHHHHHHHHHHhhCcccC--CCEEEEEeeCCc
Confidence                345677777654  35789999999988641  11111112223346778899999987543  568999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      +.+|++++|||||+..++++.|+.++|.++++.++..
T Consensus       161 ~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~  197 (257)
T 1lv7_A          161 DVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR  197 (257)
T ss_dssp             TTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             hhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999998764

>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=99.94  E-value=2.6e-26  Score=232.82  Aligned_cols=183  Identities=22%  Similarity=0.273  Sum_probs=148.9

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      .++.+|++|+|.+++|+.|.+.+..++..++.|.. +..+++|+|||||||||||++|+++|++++.+++.++++.+.  
T Consensus        45 ~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~  123 (355)
T 2qp9_X           45 KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSK  123 (355)
T ss_dssp             --CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCS-SCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSC
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhc-CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhh
Confidence            34678999999999999999999999999998887 667788999999999999999999999999999999987652  


Q ss_pred             ----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          ....++.+|...  ..++||||||||.+...+.  ..   .........++|+..||++... ..+++||+|||.+
T Consensus       124 ~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~--~~---~~~~~~~~~~~ll~~l~~~~~~-~~~v~vI~atn~~  197 (355)
T 2qp9_X          124 WMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRG--EG---ESEASRRIKTELLVQMNGVGND-SQGVLVLGATNIP  197 (355)
T ss_dssp             C---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC-----------CTHHHHHHHHHHHHHHHCC----CCEEEEEEESCG
T ss_pred             hcchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCC--CC---cchHHHHHHHHHHHHhhccccc-CCCeEEEeecCCc
Confidence                345566666544  4789999999999864211  11   1223456678899999987542 3568999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCC
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSH  392 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~  392 (455)
                      +.||++++|  ||+..++++.|+.++|..+++.++.....
T Consensus       198 ~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~  235 (355)
T 2qp9_X          198 WQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPS  235 (355)
T ss_dssp             GGSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCB
T ss_pred             ccCCHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCC
Confidence            999999999  99999999999999999999999876543

>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=99.93  E-value=2.2e-25  Score=232.51  Aligned_cols=182  Identities=23%  Similarity=0.257  Sum_probs=148.3

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-CCcEEEEeccccC-
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-KFDIYDMELASLR-  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-~~~v~~l~~~~~~-  278 (455)
                      .++.+|++|+|.+++|+.|.+.+..++..++.|.. +..+++|+|||||||||||++|+++|+++ +.+++.++++.+. 
T Consensus       128 ~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~~  206 (444)
T 2zan_A          128 RPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVS  206 (444)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSG-GGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC----
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhc-cCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHHh
Confidence            45678999999999999999999999999888875 45667899999999999999999999999 8899999887753 


Q ss_pred             -----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCC
Q 047029          279 -----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY  351 (455)
Q Consensus       279 -----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~  351 (455)
                           ....++.+|...  ..++||||||||.+...  +...   ........++.||..||++... ..+++||+|||.
T Consensus       207 ~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~--~~~~---~~~~~~~~~~~lL~~l~~~~~~-~~~v~vI~atn~  280 (444)
T 2zan_A          207 KWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGS--RSEN---ESEAARRIKTEFLVQMQGVGVD-NDGILVLGATNI  280 (444)
T ss_dssp             -----CCCTHHHHHHHHHHSCSEEEEESCTTTTCCC--SSCC---CCGGGHHHHHHHHTTTTCSSCC-CSSCEEEEEESC
T ss_pred             hhcchHHHHHHHHHHHHHHcCCeEEEEechHhhccC--CCCc---cccHHHHHHHHHHHHHhCcccC-CCCEEEEecCCC
Confidence                 234566666543  47899999999998642  1111   1233456778999999997532 357999999999


Q ss_pred             CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccC
Q 047029          352 KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKS  391 (455)
Q Consensus       352 ~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~  391 (455)
                      ++.||++++|  ||+..++++.|+.++|..|++.++....
T Consensus       281 ~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~  318 (444)
T 2zan_A          281 PWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHLGSTQ  318 (444)
T ss_dssp             GGGSCHHHHT--TCCEEEECCCCCHHHHHHHHHHHHTTSC
T ss_pred             ccccCHHHHh--hcceEEEeCCcCHHHHHHHHHHHHhcCC
Confidence            9999999999  9999999999999999999999986543

>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=99.93  E-value=5.8e-25  Score=222.98  Aligned_cols=247  Identities=19%  Similarity=0.287  Sum_probs=180.8

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC-
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS-  279 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~-  279 (455)
                      .++.+|++++|.+++++.|.+.+..++..++.|...+ ..++++||+||||||||++|+++|+.++.+++.++++.+.. 
T Consensus        78 ~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~  156 (357)
T 3d8b_A           78 GPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSK  156 (357)
T ss_dssp             SCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-SCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCS
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhcc-CCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhcc
Confidence            3567999999999999999999999899998888765 55789999999999999999999999999999999987632 


Q ss_pred             -----hHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          280 -----NSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       280 -----~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                           ...++.+|...  ..++||||||||.+...+  ..   .........+..++..+++.....+..++||+|||.+
T Consensus       157 ~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~--~~---~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~  231 (357)
T 3d8b_A          157 WVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQR--GD---GEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRP  231 (357)
T ss_dssp             STTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC-----------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCG
T ss_pred             ccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccC--CC---CcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCCh
Confidence                 23455555433  468999999999986421  11   1123345677889999998865555678999999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCch-HHHHHhhcccc-Cchh--HHHhc-------------
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMF-DEIEELIKEVE-VTPA--EEFMK-------------  415 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~-~ei~~ll~~~~-~tpa--~~l~~-------------  415 (455)
                      +.||++++|  ||+..++++.|+.+++..++..++......+. .++..+..... ++++  ..++.             
T Consensus       232 ~~l~~~l~~--Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~t~G~s~~dl~~l~~~a~~~~ir~l~~~  309 (357)
T 3d8b_A          232 QEIDEAARR--RLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIRSLQTA  309 (357)
T ss_dssp             GGBCHHHHT--TCCEEEECCCCCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHHHTHHHHHCCC-
T ss_pred             hhCCHHHHh--hCceEEEeCCcCHHHHHHHHHHHHhhcCCCccHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHhhhh
Confidence            999999999  99999999999999999999998865443332 23333333221 3333  11111             


Q ss_pred             -------cCCHHHHHHHHHHHHHHhhhhccccchhhhhhhhhhccCC
Q 047029          416 -------SEDADVALNGLVDFLLRKKEQTMKCNEEENESLKNEEDCT  455 (455)
Q Consensus       416 -------~~~~~~al~~l~~~l~~~~~~~~~~~~~~~~~~k~~~~~~  455 (455)
                             ........+.+.++++..+........+..+.+.+.++|+
T Consensus       310 ~~~~~~~~~~~~i~~~d~~~al~~~~ps~~~~~~~~~~~~~~~~g~~  356 (357)
T 3d8b_A          310 DIATITPDQVRPIAYIDFENAFRTVRPSVSPKDLELYENWNKTFGCG  356 (357)
T ss_dssp             ---------CCCBCHHHHHHHHHHHGGGCCCCCHHHHHHHHHHHSCC
T ss_pred             hhccccccccCCcCHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhCCC
Confidence                   1111234567778888887766666667788888888774

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.92  E-value=6.7e-25  Score=231.11  Aligned_cols=183  Identities=27%  Similarity=0.375  Sum_probs=151.4

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC--
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS--  279 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~--  279 (455)
                      ++.+|++++|.+++|+++.+.+. ++..+..|..+|...++|+||+||||||||+|++++|++++.+++.++++.+..  
T Consensus        26 ~~~~f~dv~G~~~~k~~l~~lv~-~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~  104 (499)
T 2dhr_A           26 PKVTFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMF  104 (499)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHH-HHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSC
T ss_pred             CCCCHHHcCCcHHHHHHHHHHHH-HhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhh
Confidence            56789999999999999988665 678888999999999999999999999999999999999999999999887632  


Q ss_pred             ----hHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          280 ----NSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       280 ----~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                          ...++.+|....  .|+|+||||||.+...+  .............+++.++..|||....  ..++++++||+|+
T Consensus       105 ~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r--~~~~~~~~~e~~~~l~~LL~~Ldg~~~~--~~viviAatn~p~  180 (499)
T 2dhr_A          105 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR--GSGVGGGNDEREQTLNQLLVEMDGFEKD--TAIVVMAATNRPD  180 (499)
T ss_dssp             TTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCS--SSSTTTSSHHHHHHHHHHHHHGGGCCSS--CCCEEEECCSCGG
T ss_pred             hhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhh--ccCcCCCcHHHHHHHHHHHHHhcccccC--ccEEEEEecCChh
Confidence                245666776653  47999999999885421  1111112233456788999999987543  5689999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      .||++++||||||.+|+++.|+.++|.+|++.++..
T Consensus       181 ~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~  216 (499)
T 2dhr_A          181 ILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARG  216 (499)
T ss_dssp             GSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSS
T ss_pred             hcCcccccccccceEEecCCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999988754

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.92  E-value=6.4e-25  Score=224.97  Aligned_cols=188  Identities=26%  Similarity=0.317  Sum_probs=150.2

Q ss_pred             ccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC
Q 047029          199 NLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR  278 (455)
Q Consensus       199 ~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~  278 (455)
                      ...++.+|++++|.+.+++.|.+.+..+...++.|...+. +++++|||||||||||++|+++|++++.+++.++++.+.
T Consensus       107 ~~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~  185 (389)
T 3vfd_A          107 DNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRA-PARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLT  185 (389)
T ss_dssp             CCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGC-CCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC-
T ss_pred             ccCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCC-CCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhh
Confidence            4567889999999999999999999999998888888774 478999999999999999999999999999999998763


Q ss_pred             ------ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcC
Q 047029          279 ------SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTN  350 (455)
Q Consensus       279 ------~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN  350 (455)
                            ....++.+|...  ..++||||||||.++..+.  .   .........+..|+..+++.....+..++||+|||
T Consensus       186 ~~~~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~--~---~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn  260 (389)
T 3vfd_A          186 SKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERR--E---GEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATN  260 (389)
T ss_dssp             ------CHHHHHHHHHHHHHSSSEEEEEETGGGGC-------------CTHHHHHHHHHHHHHHHC-----CEEEEEEES
T ss_pred             ccccchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCC--C---ccchHHHHHHHHHHHHhhcccccCCCCEEEEEecC
Confidence                  234455666443  4679999999999865211  1   11223456778899999988765556799999999


Q ss_pred             CCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc
Q 047029          351 YKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM  394 (455)
Q Consensus       351 ~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l  394 (455)
                      +++.||++++|  ||+.+|+++.|+.+++..+++.++......+
T Consensus       261 ~~~~l~~~l~~--R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l  302 (389)
T 3vfd_A          261 RPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNLLCKQGSPL  302 (389)
T ss_dssp             CGGGCCHHHHT--TCCEEEECCCCCHHHHHHHHHHHHTTSCCCS
T ss_pred             CchhcCHHHHc--CcceEEEcCCcCHHHHHHHHHHHHHhcCCCC
Confidence            99999999999  9999999999999999999999987654444

>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=99.92  E-value=9.7e-25  Score=229.94  Aligned_cols=182  Identities=24%  Similarity=0.327  Sum_probs=155.1

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC---
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR---  278 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~---  278 (455)
                      .+.+|++++|.+..+++|.+.+..++.+++.|..+|..+++|+|||||||||||++|+++|++++.+++.++++.+.   
T Consensus       199 ~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~  278 (489)
T 3hu3_A          199 NEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL  278 (489)
T ss_dssp             TCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSC
T ss_pred             CCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhh
Confidence            35689999999999999999999999999999999999999999999999999999999999999999999987753   


Q ss_pred             ---ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          279 ---SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       279 ---~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                         ....++.+|...  ..|+||||||||.+...+  ..   .........++.|+..||+....  .+++||+|||+++
T Consensus       279 ~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~--~~---~~~~~~~~~~~~LL~~ld~~~~~--~~v~vIaaTn~~~  351 (489)
T 3hu3_A          279 AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR--EK---THGEVERRIVSQLLTLMDGLKQR--AHVIVMAATNRPN  351 (489)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCT--TS---CCCHHHHHHHHHHHHHHHHSCTT--SCEEEEEEESCGG
T ss_pred             cchhHHHHHHHHHHHHhcCCcEEEecchhhhcccc--cc---ccchHHHHHHHHHHHHhhccccC--CceEEEEecCCcc
Confidence               234566677554  468999999999986521  11   11223456778899999987554  5699999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      .||++++|+|||+..|+++.|+.++|.++++.++...
T Consensus       352 ~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~  388 (489)
T 3hu3_A          352 SIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNM  388 (489)
T ss_dssp             GBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTS
T ss_pred             ccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999988653

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.91  E-value=3e-24  Score=211.07  Aligned_cols=186  Identities=26%  Similarity=0.344  Sum_probs=146.4

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC-
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS-  279 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~-  279 (455)
                      .++.+|++++|.+++++.+.+.+.....+++.|..++ .+++++||+||||||||++|+++|++++.+++.++++.+.+ 
T Consensus        15 ~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~   93 (297)
T 3b9p_A           15 GAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSK   93 (297)
T ss_dssp             SSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGG-CCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSS
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCC-CCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhc
Confidence            4567999999999999999999998888888888776 45789999999999999999999999999999999887632 


Q ss_pred             -----hHHHHHHHHh--hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc-CCCceEEEEEcCC
Q 047029          280 -----NSDLRRLLVS--TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS-CGDERIIVFTTNY  351 (455)
Q Consensus       280 -----~~~l~~ll~~--~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~-~~~~~ivI~TTN~  351 (455)
                           ...++.++..  ...++||||||+|.+...+...     .........+.|+..+|+.... .+..++||+|||.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~-----~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~  168 (297)
T 3b9p_A           94 YVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSS-----EHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNR  168 (297)
T ss_dssp             SCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC----------CCSHHHHHHHHHHHHHCC------CEEEEEEESC
T ss_pred             ccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccC-----cchHHHHHHHHHHHHHhcccccCCCCcEEEEeecCC
Confidence                 2344455533  3578999999999986521110     1122345667889999987543 2356899999999


Q ss_pred             CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc
Q 047029          352 KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM  394 (455)
Q Consensus       352 ~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l  394 (455)
                      ++.+|++++|  ||+..++++.|+.+++..+++.++......+
T Consensus       169 ~~~l~~~l~~--R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~  209 (297)
T 3b9p_A          169 PQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGSPL  209 (297)
T ss_dssp             GGGBCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHGGGSCCS
T ss_pred             hhhCCHHHHh--hCCeEEEeCCcCHHHHHHHHHHHHHhcCCCC
Confidence            9999999999  9999999999999999999999887654433

>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=99.91  E-value=4.4e-25  Score=213.92  Aligned_cols=185  Identities=30%  Similarity=0.391  Sum_probs=145.9

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC---
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR---  278 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~---  278 (455)
                      ++.+|++++|.+++++.+.+.+. ++..++.|..+|...++|+|||||||||||++|+++|++++.+++.++++.+.   
T Consensus         6 ~~~~~~~i~G~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~   84 (268)
T 2r62_A            6 PNVRFKDMAGNEEAKEEVVEIVD-FLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMF   84 (268)
T ss_dssp             CCCCSTTSSSCTTTHHHHHHHHH-HHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTSC
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHH-HHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHhh
Confidence            45689999999999999988765 68889999999999999999999999999999999999999999988877652   


Q ss_pred             ---ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          279 ---SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       279 ---~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                         +...++.+|...  ..++||||||+|.+...+.... ...........++.|++.+++.... ...++||+|||.++
T Consensus        85 ~~~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~-~~~~~~~~~~~~~~ll~~l~~~~~~-~~~v~vi~ttn~~~  162 (268)
T 2r62_A           85 VGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGG-VVSGNDEREQTLNQLLAEMDGFGSE-NAPVIVLAATNRPE  162 (268)
T ss_dssp             SSSCSSSSSTTHHHHHHSCSCEEEESCGGGTTC-----------CCCSCSSTTTTTTTTTCSSCS-CSCCEEEECBSCCT
T ss_pred             cchHHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccc-cCCCchhHHHHHHHHHHHhhCcccC-CCCEEEEEecCCch
Confidence               122333444332  3679999999999865221111 1111223345678899999886442 34589999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      .+|++++|+|||+..|+++.|+.++|.++++.++..
T Consensus       163 ~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~  198 (268)
T 2r62_A          163 ILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKG  198 (268)
T ss_dssp             TSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSS
T ss_pred             hcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999998864

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.91  E-value=1.7e-24  Score=213.76  Aligned_cols=165  Identities=19%  Similarity=0.177  Sum_probs=118.0

Q ss_pred             hhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC------hHHHHHHHHhh------CCceEEEEecc
Q 047029          234 SRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS------NSDLRRLLVST------GNRSILVIEDI  301 (455)
Q Consensus       234 ~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~------~~~l~~ll~~~------~~~~IL~iDEi  301 (455)
                      ...+..+|+|+|||||||||||++|+++|++++.+++.++++.+.+      ...++.+|...      ..++|||||||
T Consensus        29 ~~~~~~~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEi  108 (293)
T 3t15_A           29 KLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDL  108 (293)
T ss_dssp             CCTTCCCCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCEEEECC
T ss_pred             hcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEEEEech
Confidence            3446788999999999999999999999999999999999887632      34566677554      36899999999


Q ss_pred             cchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccc---------cCCCceEEEEEcCCCCCCCccccCCCceeEEEEeC
Q 047029          302 DCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS---------SCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMS  372 (455)
Q Consensus       302 D~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~---------~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~  372 (455)
                      |.+..   +..+........+...+.|++.+|+...         ....+++||+|||+++.||++++|||||+.+|++ 
T Consensus       109 D~~~~---~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~~-  184 (293)
T 3t15_A          109 DAGAG---RMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYWA-  184 (293)
T ss_dssp             C-----------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEEC-
T ss_pred             hhhcC---CCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEeC-
Confidence            99865   1111111122344566889999985531         1235689999999999999999999999999984 


Q ss_pred             CCCHHHHHHHHHHhhcccCCCchHHHHHhhcc
Q 047029          373 YLTPGGFKILAFNYLKIKSHSMFDEIEELIKE  404 (455)
Q Consensus       373 ~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~  404 (455)
                       |+.++|.+|++.++...+ ...+++..+...
T Consensus       185 -P~~~~r~~Il~~~~~~~~-~~~~~l~~~~~~  214 (293)
T 3t15_A          185 -PTREDRIGVCTGIFRTDN-VPAEDVVKIVDN  214 (293)
T ss_dssp             -CCHHHHHHHHHHHHGGGC-CCHHHHHHHHHH
T ss_pred             -cCHHHHHHHHHHhccCCC-CCHHHHHHHhCC
Confidence             699999999998887543 234556555554

>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=99.91  E-value=2e-23  Score=200.91  Aligned_cols=184  Identities=27%  Similarity=0.375  Sum_probs=145.3

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      .++.+|++++|.+++++++.+... ++..+..+..++...++|++|+||||||||++++++|+.++..++.++...+.  
T Consensus        10 ~~~~~~~~i~g~~~~~~~l~~l~~-~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~~   88 (254)
T 1ixz_A           10 APKVTFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM   88 (254)
T ss_dssp             CCSCCGGGCCSCHHHHHHHHHHHH-HHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHS
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHH-HHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHHH
Confidence            445699999999999999987655 56777889999999999999999999999999999999999999988875541  


Q ss_pred             ----ChHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          ....+..+|....  .++++++||||.+...+.  .............+..+++.++|....  ..++++++||.|
T Consensus        89 ~~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~--~~~~~~~~~~~~~~~~ll~~l~g~~~~--~~~i~~a~t~~p  164 (254)
T 1ixz_A           89 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRG--SGVGGGNDEREQTLNQLLVEMDGFEKD--TAIVVMAATNRP  164 (254)
T ss_dssp             CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC-----------CHHHHHHHHHHHHHHHTCCTT--CCEEEEEEESCG
T ss_pred             HhhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccC--ccccccchHHHHHHHHHHHHHhCCCCC--CCEEEEEccCCc
Confidence                1244566776653  579999999998754221  111111223345678899999987543  457888999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      +.||++++|+|||+.+|+++.|+.++|.++++.++..
T Consensus       165 ~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~  201 (254)
T 1ixz_A          165 DILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARG  201 (254)
T ss_dssp             GGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTT
T ss_pred             hhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcC
Confidence            9999999999999999999999999999999988753

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.89  E-value=2e-22  Score=196.89  Aligned_cols=184  Identities=27%  Similarity=0.374  Sum_probs=144.9

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--  278 (455)
                      .++.+|++++|.+++++++.+... ++..+..+..++...++|++|+||||||||+|++++|+.++..++.++...+.  
T Consensus        34 ~~~~~~~~i~g~~~~~~~l~~l~~-~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~  112 (278)
T 1iy2_A           34 APKVTFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM  112 (278)
T ss_dssp             CCCCCGGGSSSCHHHHHHHHHHHH-HHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHS
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHH-HHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHH
Confidence            466799999999999999877655 56777889999999999999999999999999999999999999988876541  


Q ss_pred             ----ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          279 ----SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       279 ----~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                          ....+..+|...  ..++++++||||.+...+..  ............+..+++.++|....  ..++++++||.|
T Consensus       113 ~~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~--~~~~~~~~~~~~~~~ll~~lsgg~~~--~~~i~~a~t~~p  188 (278)
T 1iy2_A          113 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGS--GVGGGNDEREQTLNQLLVEMDGFEKD--TAIVVMAATNRP  188 (278)
T ss_dssp             TTTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC----------CHHHHHHHHHHHHHHTTCCTT--CCEEEEEEESCT
T ss_pred             HhhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhccccc--ccCCcchHHHHHHHHHHHHHhCCCCC--CCEEEEEecCCc
Confidence                123455666554  35799999999987542111  00111223345677888889887432  457888999999


Q ss_pred             CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          353 ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       353 ~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      +.||++++|+|||+.+|+++.|+.++|.++++.++..
T Consensus       189 ~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~  225 (278)
T 1iy2_A          189 DILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARG  225 (278)
T ss_dssp             TSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTT
T ss_pred             hhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHcc
Confidence            9999999999999999999999999999999988753

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.81  E-value=7.5e-19  Score=175.63  Aligned_cols=172  Identities=17%  Similarity=0.187  Sum_probs=138.6

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN  280 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~  280 (455)
                      -.|.+|++++|.+..++.+...+......        .....++||+||||||||++|+++|+.++.+++.+++..+...
T Consensus        23 ~~p~~~~~iiG~~~~~~~l~~~l~~~~~~--------~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~~~   94 (338)
T 3pfi_A           23 LRPSNFDGYIGQESIKKNLNVFIAAAKKR--------NECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEKS   94 (338)
T ss_dssp             CCCCSGGGCCSCHHHHHHHHHHHHHHHHT--------TSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCCSH
T ss_pred             cCCCCHHHhCChHHHHHHHHHHHHHHHhc--------CCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhccch
Confidence            45679999999999999988877654321        2335689999999999999999999999999999999988888


Q ss_pred             HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc--------------CCCceEEE
Q 047029          281 SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS--------------CGDERIIV  346 (455)
Q Consensus       281 ~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~--------------~~~~~ivI  346 (455)
                      ..+...+.....+++|||||||.+..                .....|+..++...-.              ....+++|
T Consensus        95 ~~~~~~~~~~~~~~vl~lDEi~~l~~----------------~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i  158 (338)
T 3pfi_A           95 GDLAAILTNLSEGDILFIDEIHRLSP----------------AIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLI  158 (338)
T ss_dssp             HHHHHHHHTCCTTCEEEEETGGGCCH----------------HHHHHHHHHHHTSCC---------CCCCCCCCCCCEEE
T ss_pred             hHHHHHHHhccCCCEEEEechhhcCH----------------HHHHHHHHHHHhccchhhcccCccccceecCCCCeEEE
Confidence            88888888888899999999998742                3445566666543200              01147899


Q ss_pred             EEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHH
Q 047029          347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEI  398 (455)
Q Consensus       347 ~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei  398 (455)
                      ++||....++++|++  ||+.+++++.|+.+++..++..++......+.++.
T Consensus       159 ~atn~~~~l~~~L~~--R~~~~i~l~~~~~~e~~~il~~~~~~~~~~~~~~~  208 (338)
T 3pfi_A          159 GATTRAGMLSNPLRD--RFGMQFRLEFYKDSELALILQKAALKLNKTCEEKA  208 (338)
T ss_dssp             EEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTCEECHHH
T ss_pred             EeCCCccccCHHHHh--hcCEEeeCCCcCHHHHHHHHHHHHHhcCCCCCHHH
Confidence            999999999999999  99999999999999999999998876544444443

>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=99.79  E-value=3.9e-20  Score=193.43  Aligned_cols=166  Identities=17%  Similarity=0.123  Sum_probs=114.8

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC--CcEEEEeccccCC
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK--FDIYDMELASLRS  279 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~--~~v~~l~~~~~~~  279 (455)
                      +...|++++|.+++++.+...+..+        +.|..+++|+|||||||||||++|+++|++++  .+++.++++.+.+
T Consensus        32 ~~~~~~~iiG~~~~~~~l~~~~~~~--------~~~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~~  103 (456)
T 2c9o_A           32 AKQAASGLVGQENAREACGVIVELI--------KSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYS  103 (456)
T ss_dssp             BCSEETTEESCHHHHHHHHHHHHHH--------HTTCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGCC
T ss_pred             hhhchhhccCHHHHHHHHHHHHHHH--------HhCCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHHH
Confidence            3456899999999999888766432        23666789999999999999999999999999  8999999887632


Q ss_pred             -----hHHHHHHHHhh-----CCceEEEEecccchhhhhhhcCCCCCCCCcch---------------hhHhhhhhhhhc
Q 047029          280 -----NSDLRRLLVST-----GNRSILVIEDIDCSIELENRQCGGGYDENNSQ---------------VTLSGLLNFVDG  334 (455)
Q Consensus       280 -----~~~l~~ll~~~-----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~---------------~~ls~LL~~ldg  334 (455)
                           ...+++.|..+     ..|+||||||||.+...+........ .....               .....++..++.
T Consensus       104 ~~~~~~~~~~~~f~~a~~~~~~~~~il~iDEid~l~~~r~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~~ll~~l~~  182 (456)
T 2c9o_A          104 TEIKKTEVLMENFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGY-GKTISHVIIGLKTAKGTKQLKLDPSIFESLQK  182 (456)
T ss_dssp             SSSCHHHHHHHHHHHTEEEEEEEEEEEEEEEEEEEEEC---------------CEEEEEEETTEEEEEEECHHHHHHHHH
T ss_pred             HhhhhhHHHHHHHHHHHhhhhcCCcEEEEechhhcccccCCCCCCCc-chHHHHHHHHHhccccchhHhhhHHHHHHHhh
Confidence                 23477777665     46899999999999763322111110 00111               112224444442


Q ss_pred             ccccCCCceEEEEEcCCCCCCCccccCCCceeE--EEEeCCCCH
Q 047029          335 LWSSCGDERIIVFTTNYKERLDPALLRPGRMDM--HIHMSYLTP  376 (455)
Q Consensus       335 ~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~--~I~~~~p~~  376 (455)
                      .....++.++|++|||+++.+|++++||||||.  .+.++.|+.
T Consensus       183 ~~~~~~~~v~i~attn~~~~ld~a~~r~~rfd~~~~~~v~~p~~  226 (456)
T 2c9o_A          183 ERVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKG  226 (456)
T ss_dssp             TTCCTTEEEEEETTTCCEEEEEEETTSCCTTSCSSSSEECCCCS
T ss_pred             ccCCCCCEEEEEcCCCCcccCChhhcCCcccCcceeEecCCCch
Confidence            222233445556899999999999999999998  566777754

>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=99.77  E-value=7e-18  Score=167.12  Aligned_cols=171  Identities=22%  Similarity=0.263  Sum_probs=134.5

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN  280 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~  280 (455)
                      -.|.+|++++|.+..++.+.+.+......        ...+.++||+||||||||++|+++|+.++.+++.++++.+...
T Consensus         6 ~~p~~~~~~ig~~~~~~~l~~~l~~~~~~--------~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~   77 (324)
T 1hqc_A            6 LRPKTLDEYIGQERLKQKLRVYLEAAKAR--------KEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP   77 (324)
T ss_dssp             CCCCSTTTCCSCHHHHHHHHHHHHHHHHH--------CSCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCSH
T ss_pred             cCcccHHHhhCHHHHHHHHHHHHHHHHcc--------CCCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCCh
Confidence            35679999999999999888877654321        1235789999999999999999999999999999999988777


Q ss_pred             HHHHHHHHh-hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccc-----c---------CCCceEE
Q 047029          281 SDLRRLLVS-TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS-----S---------CGDERII  345 (455)
Q Consensus       281 ~~l~~ll~~-~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~-----~---------~~~~~iv  345 (455)
                      ..+...+.. ...+++|||||||.+..                .....|+..++....     .         ...++++
T Consensus        78 ~~l~~~l~~~~~~~~~l~lDEi~~l~~----------------~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~  141 (324)
T 1hqc_A           78 GDLAAILANSLEEGDILFIDEIHRLSR----------------QAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  141 (324)
T ss_dssp             HHHHHHHTTTCCTTCEEEETTTTSCCH----------------HHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEE
T ss_pred             HHHHHHHHHhccCCCEEEEECCccccc----------------chHHHHHHHHHhhhhHHhccccccccccccCCCCEEE
Confidence            888888776 67789999999998742                233445555553210     0         0124789


Q ss_pred             EEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH
Q 047029          346 VFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE  397 (455)
Q Consensus       346 I~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e  397 (455)
                      |++||.++.+++++.+  ||+.++.++.|+.+++..++..++...+..+.++
T Consensus       142 i~~t~~~~~~~~~l~~--R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~  191 (324)
T 1hqc_A          142 IGATTRPGLITAPLLS--RFGIVEHLEYYTPEELAQGVMRDARLLGVRITEE  191 (324)
T ss_dssp             EEEESCCSSCSCSTTT--TCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHH
T ss_pred             EEeCCCcccCCHHHHh--cccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHH
Confidence            9999999999999999  9998999999999999999999887554444443

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.77  E-value=2.2e-18  Score=169.84  Aligned_cols=180  Identities=17%  Similarity=0.233  Sum_probs=135.8

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCC---ceeEEECCCCCChHHHHHHHHHHcC-------CcEEEEecccc
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWK---RGYLLYGPPGTGKSSLIAAMANYLK-------FDIYDMELASL  277 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~---rg~LL~GPpGTGKTsla~alA~~l~-------~~v~~l~~~~~  277 (455)
                      +++|.+++|+.|.+.+..+. .+..+.+.|+..+   .++||+||||||||++|+++|+.++       .+++.++++.+
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~-~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l  110 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLL-VERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDL  110 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHH-HHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGT
T ss_pred             HccChHHHHHHHHHHHHHHH-hHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHh
Confidence            68999999999999887654 4666777776654   4699999999999999999999983       38888888776


Q ss_pred             CC------hHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCC
Q 047029          278 RS------NSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY  351 (455)
Q Consensus       278 ~~------~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~  351 (455)
                      .+      ...+..+|... .++||||||+|.+...+.       ........+..|++.++..    ..++++|++||.
T Consensus       111 ~~~~~g~~~~~~~~~~~~~-~~~vl~iDEid~l~~~~~-------~~~~~~~~~~~Ll~~l~~~----~~~~~~i~~~~~  178 (309)
T 3syl_A          111 VGQYIGHTAPKTKEVLKRA-MGGVLFIDEAYYLYRPDN-------ERDYGQEAIEILLQVMENN----RDDLVVILAGYA  178 (309)
T ss_dssp             CCSSTTCHHHHHHHHHHHH-TTSEEEEETGGGSCCCC----------CCTHHHHHHHHHHHHHC----TTTCEEEEEECH
T ss_pred             hhhcccccHHHHHHHHHhc-CCCEEEEEChhhhccCCC-------cccccHHHHHHHHHHHhcC----CCCEEEEEeCCh
Confidence            32      34455666554 578999999998863110       1122456677888888864    246788899986


Q ss_pred             CC-----CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          352 KE-----RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       352 ~~-----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                      .+     .++|+|++  ||+.+|+|+.|+.+++..+++.++......+.++....+
T Consensus       179 ~~~~~~~~~~~~l~~--R~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~l  232 (309)
T 3syl_A          179 DRMENFFQSNPGFRS--RIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETAL  232 (309)
T ss_dssp             HHHHHHHHHSTTHHH--HEEEEEEECCCCHHHHHHHHHHHHHHTTCEECHHHHHHH
T ss_pred             HHHHHHHhhCHHHHH--hCCeEEEcCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            53     35799999  999999999999999999999999876555555544443

>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=99.76  E-value=3e-19  Score=184.95  Aligned_cols=162  Identities=15%  Similarity=0.148  Sum_probs=74.4

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcC-CCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--------
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGK-AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--------  278 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~-~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--------  278 (455)
                      .|+|+++.|+.+...+...++++..+...+. .+++|+||+||||||||++++++|+.++.+++.++++.+.        
T Consensus        16 ~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~~g~vG~d   95 (444)
T 1g41_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   95 (444)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCCC
T ss_pred             HhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcccceeecc
Confidence            6899999999999998877777766665544 3678999999999999999999999999999999986542        


Q ss_pred             ChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEE-cCCCCCCCc
Q 047029          279 SNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFT-TNYKERLDP  357 (455)
Q Consensus       279 ~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~T-TN~~~~Ld~  357 (455)
                      ....++.++...  ..++++||++.+...        ........+++.||+.|||+.+.  .. + +++ ||+++.||+
T Consensus        96 ~e~~lr~lf~~a--~~~~~~De~d~~~~~--------~~~~~e~rvl~~LL~~~dg~~~~--~~-v-~a~~TN~~~~ld~  161 (444)
T 1g41_A           96 VDSIIRDLTDSA--MKLVRQQEIAKNRAR--------AEDVAEERILDALLPPAKNQWGE--VE-N-HDSHSSTRQAFRK  161 (444)
T ss_dssp             THHHHHHHHHHH--HHHHHHHHHHSCC-----------------------------------------------------
T ss_pred             HHHHHHHHHHHH--Hhcchhhhhhhhhcc--------chhhHHHHHHHHHHHHhhccccc--cc-c-ccccccCHHHHHH
Confidence            245566666443  223457888765321        11234467899999999999664  22 2 454 999999999


Q ss_pred             cccCCCceeEEEEeCCCCHH-HHHHHH
Q 047029          358 ALLRPGRMDMHIHMSYLTPG-GFKILA  383 (455)
Q Consensus       358 allRpGR~d~~I~~~~p~~~-~~~~L~  383 (455)
                      ||+||||||.+|+++.|+.. .+.+++
T Consensus       162 aL~rggr~D~~i~i~lP~~~~~~~ei~  188 (444)
T 1g41_A          162 KLREGQLDDKEIEIDVSAGVSMGVEIM  188 (444)
T ss_dssp             ---------------------------
T ss_pred             HHHcCCCcceEEEEcCCCCccchhhhh
Confidence            99999999999999999987 455543

>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=99.72  E-value=3.6e-16  Score=144.44  Aligned_cols=160  Identities=18%  Similarity=0.242  Sum_probs=120.2

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~  275 (455)
                      ..|.+|++++|.++.++.+.+.+..    .         ...+++|+||||||||++++++++.+     ...++.++++
T Consensus        11 ~~p~~~~~~~g~~~~~~~l~~~l~~----~---------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~   77 (226)
T 2chg_A           11 YRPRTLDEVVGQDEVIQRLKGYVER----K---------NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNAS   77 (226)
T ss_dssp             TSCSSGGGCCSCHHHHHHHHHHHHT----T---------CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETT
T ss_pred             cCCCCHHHHcCcHHHHHHHHHHHhC----C---------CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccc
Confidence            4678899999998888877766541    1         13359999999999999999999986     4567888877


Q ss_pred             ccCChHHHHHHHHh--------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEE
Q 047029          276 SLRSNSDLRRLLVS--------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVF  347 (455)
Q Consensus       276 ~~~~~~~l~~ll~~--------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~  347 (455)
                      .......+...+..        ...+.||+|||+|.+..                .....|+..++..    ..+..+|+
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~----------------~~~~~l~~~l~~~----~~~~~~i~  137 (226)
T 2chg_A           78 DERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTA----------------DAQAALRRTMEMY----SKSCRFIL  137 (226)
T ss_dssp             CTTCHHHHHHHHHHHHTSCCSTTCSCEEEEEETGGGSCH----------------HHHHHHHHHHHHT----TTTEEEEE
T ss_pred             cccChHHHHHHHHHHhcccCCCccCceEEEEeChhhcCH----------------HHHHHHHHHHHhc----CCCCeEEE
Confidence            66555555444422        14678999999998742                2344566666543    24578889


Q ss_pred             EcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          348 TTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       348 TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      |||.++.+++++.+  |+. .++++.|+.++...++..++...+..+.+
T Consensus       138 ~~~~~~~~~~~l~~--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~  183 (226)
T 2chg_A          138 SCNYVSRIIEPIQS--RCA-VFRFKPVPKEAMKKRLLEICEKEGVKITE  183 (226)
T ss_dssp             EESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCH
T ss_pred             EeCChhhcCHHHHH--hCc-eeecCCCCHHHHHHHHHHHHHHcCCCCCH
Confidence            99999999999999  887 89999999999999999887654444433

>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=99.72  E-value=4.5e-17  Score=161.87  Aligned_cols=152  Identities=19%  Similarity=0.183  Sum_probs=117.6

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN  280 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~  280 (455)
                      -.|.+|++++|.+++++.+.+.+.            ....+..+|++||||||||++++++|+.++.+++.++++... .
T Consensus        20 ~rP~~~~~ivg~~~~~~~l~~~l~------------~~~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~~-~   86 (324)
T 3u61_B           20 YRPSTIDECILPAFDKETFKSITS------------KGKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCK-I   86 (324)
T ss_dssp             SCCCSTTTSCCCHHHHHHHHHHHH------------TTCCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTTCC-H
T ss_pred             hCCCCHHHHhCcHHHHHHHHHHHH------------cCCCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcccccC-H
Confidence            457899999999999887777665            123356789999999999999999999999999999987754 4


Q ss_pred             HHHHHHHHhh-------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          281 SDLRRLLVST-------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       281 ~~l~~ll~~~-------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                      ..++..+...       ..+.||||||+|.+..               ......|+..++...    .++.+|+|||.+.
T Consensus        87 ~~i~~~~~~~~~~~~~~~~~~vliiDEi~~l~~---------------~~~~~~L~~~le~~~----~~~~iI~~~n~~~  147 (324)
T 3u61_B           87 DFVRGPLTNFASAASFDGRQKVIVIDEFDRSGL---------------AESQRHLRSFMEAYS----SNCSIIITANNID  147 (324)
T ss_dssp             HHHHTHHHHHHHBCCCSSCEEEEEEESCCCGGG---------------HHHHHHHHHHHHHHG----GGCEEEEEESSGG
T ss_pred             HHHHHHHHHHHhhcccCCCCeEEEEECCcccCc---------------HHHHHHHHHHHHhCC----CCcEEEEEeCCcc
Confidence            5555544331       1578999999998741               123455666666542    3478899999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      .+++++++  ||. .++|+.|+.+++..++..++
T Consensus       148 ~l~~~l~s--R~~-~i~~~~~~~~e~~~il~~~~  178 (324)
T 3u61_B          148 GIIKPLQS--RCR-VITFGQPTDEDKIEMMKQMI  178 (324)
T ss_dssp             GSCTTHHH--HSE-EEECCCCCHHHHHHHHHHHH
T ss_pred             ccCHHHHh--hCc-EEEeCCCCHHHHHHHHHHHH
Confidence            99999999  885 69999999999776665544

>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=99.71  E-value=3.9e-17  Score=160.24  Aligned_cols=172  Identities=19%  Similarity=0.252  Sum_probs=121.3

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhh-cCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC-------
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRV-GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS-------  279 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~-g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~-------  279 (455)
                      .++|.+++++.+...+...+.+....... +...+.++||+||||||||++|+++|+.++.+++.++++.+..       
T Consensus        16 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~~   95 (310)
T 1ofh_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   95 (310)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGS
T ss_pred             hcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCcc
Confidence            58899999999988887644332221111 1134679999999999999999999999999999999887632       


Q ss_pred             -hHHHHHHHHhh-------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc------CCCceEE
Q 047029          280 -NSDLRRLLVST-------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS------CGDERII  345 (455)
Q Consensus       280 -~~~l~~ll~~~-------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~------~~~~~iv  345 (455)
                       ...+..++...       ..++||||||+|.+.....    ....+.......+.|+..+++....      ....+++
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~----~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~  171 (310)
T 1ofh_A           96 VDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGE----YSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILF  171 (310)
T ss_dssp             TTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSS----CCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEE
T ss_pred             HHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCcccc----ccccchhHHHHHHHHHHHhcCCeEecccccccCCcEEE
Confidence             23455655432       2478999999998854110    0001111122356778888764210      1235778


Q ss_pred             EEE----cCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHH
Q 047029          346 VFT----TNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFN  385 (455)
Q Consensus       346 I~T----TN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~  385 (455)
                      |++    ++.+..+++++++  ||+.+|+|+.|+.+++..+++.
T Consensus       172 i~~~~~~~~~~~~l~~~l~~--R~~~~i~~~~~~~~~~~~il~~  213 (310)
T 1ofh_A          172 IASGAFQVARPSDLIPELQG--RLPIRVELTALSAADFERILTE  213 (310)
T ss_dssp             EEEECCSSSCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHS
T ss_pred             EEcCCcccCCcccCCHHHHh--hCCceEEcCCcCHHHHHHHHHh
Confidence            887    4577889999998  9999999999999999999985

>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=99.70  E-value=3.4e-16  Score=166.07  Aligned_cols=171  Identities=17%  Similarity=0.286  Sum_probs=120.2

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHh-HHHHhhhcCC---CCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKR-REFYSRVGKA---WKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS  276 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~-~~~~~~~g~~---~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~  276 (455)
                      -.|.+|++++|.+..++.+.+.+..+... +..|++.|..   .++++||+||||||||++|+++|++++.+++.++++.
T Consensus        33 yrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~in~s~  112 (516)
T 1sxj_A           33 YAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASD  112 (516)
T ss_dssp             TCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTS
T ss_pred             cCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeCCC
Confidence            46789999999999999999988865543 2444444443   5689999999999999999999999999999999988


Q ss_pred             cCChHHHHHHHHh--------------------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc
Q 047029          277 LRSNSDLRRLLVS--------------------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW  336 (455)
Q Consensus       277 ~~~~~~l~~ll~~--------------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~  336 (455)
                      ..+...+...+..                    ...+.||||||+|.+..             ..+..+..|++.++.. 
T Consensus       113 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~-------------~~~~~l~~L~~~l~~~-  178 (516)
T 1sxj_A          113 VRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSG-------------GDRGGVGQLAQFCRKT-  178 (516)
T ss_dssp             CCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCT-------------TSTTHHHHHHHHHHHC-
T ss_pred             cchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccch-------------hhHHHHHHHHHHHHhc-
Confidence            7665444333321                    14578999999998853             1122345566665542 


Q ss_pred             ccCCCceEEEEEcCC--CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc
Q 047029          337 SSCGDERIIVFTTNY--KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM  394 (455)
Q Consensus       337 ~~~~~~~ivI~TTN~--~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l  394 (455)
                           +..||+++|.  ...+. .+.|   +...|.|+.|+.+++..++...+...+..+
T Consensus       179 -----~~~iIli~~~~~~~~l~-~l~~---r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i  229 (516)
T 1sxj_A          179 -----STPLILICNERNLPKMR-PFDR---VCLDIQFRRPDANSIKSRLMTIAIREKFKL  229 (516)
T ss_dssp             -----SSCEEEEESCTTSSTTG-GGTT---TSEEEECCCCCHHHHHHHHHHHHHHHTCCC
T ss_pred             -----CCCEEEEEcCCCCccch-hhHh---ceEEEEeCCCCHHHHHHHHHHHHHHcCCCC
Confidence                 1224444443  23343 4444   446899999999999999888776544333

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.70  E-value=5.2e-16  Score=156.51  Aligned_cols=171  Identities=17%  Similarity=0.174  Sum_probs=116.8

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--cEEEEeccccC
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--DIYDMELASLR  278 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--~v~~l~~~~~~  278 (455)
                      .+..+|++++|.+..++.+...+.. +.       .|..+++++|||||||||||++|+++|+.++.  +++.+++..+.
T Consensus        38 ~p~~~~~~ivG~~~~~~~l~~l~~~-~~-------~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~~~  109 (368)
T 3uk6_A           38 EPRQASQGMVGQLAARRAAGVVLEM-IR-------EGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIF  109 (368)
T ss_dssp             CBCSEETTEESCHHHHHHHHHHHHH-HH-------TTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGGGS
T ss_pred             CcCcchhhccChHHHHHHHHHHHHH-HH-------cCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchhhh
Confidence            3334599999999998876554432 22       24555689999999999999999999999975  66666654311


Q ss_pred             --------------------------------------------------C-----hHHHHHHHHhh-------C----C
Q 047029          279 --------------------------------------------------S-----NSDLRRLLVST-------G----N  292 (455)
Q Consensus       279 --------------------------------------------------~-----~~~l~~ll~~~-------~----~  292 (455)
                                                                        +     ...++..+...       .    .
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~  189 (368)
T 3uk6_A          110 SLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEII  189 (368)
T ss_dssp             CSSSCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---C
T ss_pred             hcccchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhcccccc
Confidence                                                              0     22334443221       1    1


Q ss_pred             ceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEc-----------CCCCCCCccccC
Q 047029          293 RSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT-----------NYKERLDPALLR  361 (455)
Q Consensus       293 ~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TT-----------N~~~~Ld~allR  361 (455)
                      |+||||||+|.+..                ..++.|+..++..    ...+++++|.           |.+..++++|++
T Consensus       190 ~~vl~IDEi~~l~~----------------~~~~~L~~~le~~----~~~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~s  249 (368)
T 3uk6_A          190 PGVLFIDEVHMLDI----------------ESFSFLNRALESD----MAPVLIMATNRGITRIRGTSYQSPHGIPIDLLD  249 (368)
T ss_dssp             BCEEEEESGGGSBH----------------HHHHHHHHHTTCT----TCCEEEEEESCSEEECBTSSCEEETTCCHHHHT
T ss_pred             CceEEEhhccccCh----------------HHHHHHHHHhhCc----CCCeeeeecccceeeeeccCCCCcccCCHHHHh
Confidence            57999999998732                3455566666542    1234444443           357889999999


Q ss_pred             CCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          362 PGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       362 pGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                        ||.. +++++|+.+++..+++.++...+..+.++..+.+
T Consensus       250 --R~~~-i~~~~~~~~e~~~il~~~~~~~~~~~~~~~l~~l  287 (368)
T 3uk6_A          250 --RLLI-VSTTPYSEKDTKQILRIRCEEEDVEMSEDAYTVL  287 (368)
T ss_dssp             --TEEE-EEECCCCHHHHHHHHHHHHHHTTCCBCHHHHHHH
T ss_pred             --hccE-EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence              9976 8999999999999999988776555555444333

>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=99.69  E-value=1.8e-16  Score=153.83  Aligned_cols=167  Identities=19%  Similarity=0.221  Sum_probs=111.8

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC---C----
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR---S----  279 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~---~----  279 (455)
                      +.+++.....+.++.....+..   .....+..+++++||+||||||||++|+++|+.++.+++.+++++..   .    
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~---~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~  109 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQ---QTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAK  109 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHH---HHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHH---HHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHH
Confidence            3456666665666654322221   22333456678999999999999999999999999999999876421   1    


Q ss_pred             hHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCc
Q 047029          280 NSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDP  357 (455)
Q Consensus       280 ~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~  357 (455)
                      ...++.++...  ..++||||||||.++....      .........+..|+..+++... .+..++||+|||.++.+++
T Consensus       110 ~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~------~~~~~~~~~l~~L~~~~~~~~~-~~~~~~ii~ttn~~~~l~~  182 (272)
T 1d2n_A          110 CQAMKKIFDDAYKSQLSCVVVDDIERLLDYVP------IGPRFSNLVLQALLVLLKKAPP-QGRKLLIIGTTSRKDVLQE  182 (272)
T ss_dssp             HHHHHHHHHHHHTSSEEEEEECCHHHHTTCBT------TTTBCCHHHHHHHHHHTTCCCS-TTCEEEEEEEESCHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCcEEEEEChhhhhccCC------CChhHHHHHHHHHHHHhcCccC-CCCCEEEEEecCChhhcch
Confidence            13456666543  4689999999999864111      0112233445555666665432 2356789999999998888


Q ss_pred             -cccCCCceeEEEEeCCCCH-HHHHHHHHH
Q 047029          358 -ALLRPGRMDMHIHMSYLTP-GGFKILAFN  385 (455)
Q Consensus       358 -allRpGR~d~~I~~~~p~~-~~~~~L~~~  385 (455)
                       .+.+  ||+..|++|.++. ++...++..
T Consensus       183 ~~l~~--rf~~~i~~p~l~~r~~i~~i~~~  210 (272)
T 1d2n_A          183 MEMLN--AFSTTIHVPNIATGEQLLEALEL  210 (272)
T ss_dssp             TTCTT--TSSEEEECCCEEEHHHHHHHHHH
T ss_pred             hhhhc--ccceEEcCCCccHHHHHHHHHHh
Confidence             5555  9999999987766 555555544

>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=99.68  E-value=2.8e-16  Score=159.12  Aligned_cols=174  Identities=18%  Similarity=0.230  Sum_probs=118.2

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhh-hcC-CCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC------
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSR-VGK-AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS------  279 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~-~g~-~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~------  279 (455)
                      .++|++.+++.+...+.....+...... .+. .+++++||+||||||||++|+++|+.++.+++.++++.+..      
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~   95 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGE   95 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhcccccccc
Confidence            3689999999999888655543321111 112 24679999999999999999999999999999999987642      


Q ss_pred             --hHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc-------------
Q 047029          280 --NSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS-------------  338 (455)
Q Consensus       280 --~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~-------------  338 (455)
                        ...+..++...      ..++||||||||.+...  +.......+......++.||..|||....             
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~--~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~~~~~  173 (363)
T 3hws_A           96 DVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRK--SDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQE  173 (363)
T ss_dssp             HHTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCC--SSCC---CHHHHHHHHHHHHHHHHCC----------------
T ss_pred             cHHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhccc--ccccccccccchHHHHHHHHHHhcCceeeccCccccccCCCc
Confidence              23345555443      35789999999988541  11111111111223688899999954211             


Q ss_pred             ----CCCceEEEEEcCCC----------CC-----------------------------------CCccccCCCceeEEE
Q 047029          339 ----CGDERIIVFTTNYK----------ER-----------------------------------LDPALLRPGRMDMHI  369 (455)
Q Consensus       339 ----~~~~~ivI~TTN~~----------~~-----------------------------------Ld~allRpGR~d~~I  369 (455)
                          ...++++|+|+|..          ..                                   +.|+|+.  ||+..+
T Consensus       174 ~~~i~tsn~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~--R~~~~~  251 (363)
T 3hws_A          174 FLQVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIG--RLPVVA  251 (363)
T ss_dssp             CCCCCTTSSEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHT--TCCEEE
T ss_pred             eEEEECCCceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhc--ccCeee
Confidence                11345566666542          11                                   6788887  999999


Q ss_pred             EeCCCCHHHHHHHHHH
Q 047029          370 HMSYLTPGGFKILAFN  385 (455)
Q Consensus       370 ~~~~p~~~~~~~L~~~  385 (455)
                      .+.+|+.+.+..|+..
T Consensus       252 ~~~pl~~~~~~~I~~~  267 (363)
T 3hws_A          252 TLNELSEEALIQILKE  267 (363)
T ss_dssp             ECCCCCHHHHHHHHHS
T ss_pred             ecCCCCHHHHHHHHHH
Confidence            9999999999998886

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.68  E-value=1.1e-16  Score=144.66  Aligned_cols=152  Identities=18%  Similarity=0.239  Sum_probs=105.9

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEE
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYD  271 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~  271 (455)
                      .|.+|++++|.++..+++.+.+..             ..+++++|+||||||||++++++++.+          +.+++.
T Consensus        17 ~~~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~   83 (195)
T 1jbk_A           17 EQGKLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLA   83 (195)
T ss_dssp             HTTCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEE
T ss_pred             hhccccccccchHHHHHHHHHHhc-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEE
Confidence            367899999998888777765531             235789999999999999999999997          678888


Q ss_pred             EeccccCC--------hHHHHHHHH---hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCC
Q 047029          272 MELASLRS--------NSDLRRLLV---STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCG  340 (455)
Q Consensus       272 l~~~~~~~--------~~~l~~ll~---~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~  340 (455)
                      +++..+..        ...+..++.   ....+.||+|||+|.+......        .........+...++.      
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~--------~~~~~~~~~l~~~~~~------  149 (195)
T 1jbk_A           84 LDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKA--------DGAMDAGNMLKPALAR------  149 (195)
T ss_dssp             ECHHHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT--------------CCCCHHHHHHHHHT------
T ss_pred             eeHHHHhccCCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcc--------cchHHHHHHHHHhhcc------
Confidence            88765421        123444443   2346789999999998642110        0011112222222221      


Q ss_pred             CceEEEEEcCCCC-----CCCccccCCCceeEEEEeCCCCHHHHHHHH
Q 047029          341 DERIIVFTTNYKE-----RLDPALLRPGRMDMHIHMSYLTPGGFKILA  383 (455)
Q Consensus       341 ~~~ivI~TTN~~~-----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~  383 (455)
                      .++.+|++||.++     .+++++++  ||+ .|+++.|+.+++.+++
T Consensus       150 ~~~~~i~~~~~~~~~~~~~~~~~l~~--r~~-~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          150 GELHCVGATTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             TSCCEEEEECHHHHHHHTTTCHHHHT--TEE-EEECCCCCHHHHHTTC
T ss_pred             CCeEEEEeCCHHHHHHHHhcCHHHHH--Hhc-eeecCCCCHHHHHHHh
Confidence            3567888888775     78999999  998 6999999999988764

>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=99.67  E-value=2.9e-15  Score=139.86  Aligned_cols=161  Identities=20%  Similarity=0.291  Sum_probs=118.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      ..|.+|++++|.+..++.+.+.+..           + ..++.++|+||||||||++++++++.++.             
T Consensus        17 ~~p~~~~~~~g~~~~~~~l~~~l~~-----------~-~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~   84 (250)
T 1njg_A           17 WRPQTFADVVGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCD   84 (250)
T ss_dssp             TCCCSGGGCCSCHHHHHHHHHHHHH-----------T-CCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSH
T ss_pred             cCCccHHHHhCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccH
Confidence            4577899999999888888776642           1 12458999999999999999999998843             


Q ss_pred             -----------cEEEEeccccCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          268 -----------DIYDMELASLRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       268 -----------~v~~l~~~~~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                 +++.++.........+..++....      .+.+|+|||+|.+..                ..+..|+.
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~----------------~~~~~l~~  148 (250)
T 1njg_A           85 NCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSR----------------HSFNALLK  148 (250)
T ss_dssp             HHHHHHTTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCH----------------HHHHHHHH
T ss_pred             HHHHHhccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccH----------------HHHHHHHH
Confidence                       334444433233445666665532      468999999998632                34556777


Q ss_pred             hhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          331 FVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       331 ~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      .++..    +....+|++||.++.+++++.+  |+ ..++++.++.++..+++..++...+..+.+
T Consensus       149 ~l~~~----~~~~~~i~~t~~~~~~~~~l~~--r~-~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~  207 (250)
T 1njg_A          149 TLEEP----PEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNEEHIAHEP  207 (250)
T ss_dssp             HHHSC----CTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHTTCCBCH
T ss_pred             HHhcC----CCceEEEEEeCChHhCCHHHHH--Hh-hhccCCCCCHHHHHHHHHHHHHhcCCCCCH
Confidence            76643    3568899999999999999998  75 689999999999999999888655444333

>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=99.66  E-value=5.2e-16  Score=146.00  Aligned_cols=173  Identities=14%  Similarity=0.192  Sum_probs=113.1

Q ss_pred             cccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC---CcEEEEec
Q 047029          198 INLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---FDIYDMEL  274 (455)
Q Consensus       198 ~~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~---~~v~~l~~  274 (455)
                      ..+.++.+|+++++.+ ..+.+++.+..+...         +.+++++|+||||||||++++++|+.+.   ..++.+++
T Consensus        19 ~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~---------~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~   88 (242)
T 3bos_A           19 VHLPDDETFTSYYPAA-GNDELIGALKSAASG---------DGVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPL   88 (242)
T ss_dssp             CCCCTTCSTTTSCC---CCHHHHHHHHHHHHT---------CSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEG
T ss_pred             CCCCCCCChhhccCCC-CCHHHHHHHHHHHhC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEH
Confidence            3455668999999732 223344455444432         1367999999999999999999999884   78888888


Q ss_pred             cccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcC-CCC
Q 047029          275 ASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTN-YKE  353 (455)
Q Consensus       275 ~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN-~~~  353 (455)
                      ..+..  .+.+.+.....+.+|+|||+|.+..             . ......|+..++.....  ....+|+||| .++
T Consensus        89 ~~~~~--~~~~~~~~~~~~~vliiDe~~~~~~-------------~-~~~~~~l~~~l~~~~~~--~~~~ii~~~~~~~~  150 (242)
T 3bos_A           89 GIHAS--ISTALLEGLEQFDLICIDDVDAVAG-------------H-PLWEEAIFDLYNRVAEQ--KRGSLIVSASASPM  150 (242)
T ss_dssp             GGGGG--SCGGGGTTGGGSSEEEEETGGGGTT-------------C-HHHHHHHHHHHHHHHHH--CSCEEEEEESSCTT
T ss_pred             HHHHH--HHHHHHHhccCCCEEEEeccccccC-------------C-HHHHHHHHHHHHHHHHc--CCCeEEEEcCCCHH
Confidence            76532  1222333345689999999998742             1 11234455555544332  2232555555 443


Q ss_pred             ---CCCccccCCCcee--EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHH
Q 047029          354 ---RLDPALLRPGRMD--MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEE  400 (455)
Q Consensus       354 ---~Ld~allRpGR~d--~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~  400 (455)
                         .+++++.+  |+.  ..++++.|+.+++.+++..++...+..+.+++.+
T Consensus       151 ~~~~~~~~l~~--r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  200 (242)
T 3bos_A          151 EAGFVLPDLVS--RMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQLPEDVGR  200 (242)
T ss_dssp             TTTCCCHHHHH--HHHHSEEEECCCCCGGGHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             HHHHhhhhhhh--HhhcCceEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence               45688888  776  8999999999999999999887554444444433

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.66  E-value=1.5e-15  Score=158.22  Aligned_cols=150  Identities=20%  Similarity=0.338  Sum_probs=112.6

Q ss_pred             CCCCCCcccccCHHHH---HHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc
Q 047029          201 DHPSTFDTLAMDPVLK---QALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL  277 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k---~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~  277 (455)
                      -.|.+|++++|.++++   +.+...+.    .       |.  ..++|||||||||||++|+++|+.++.+++.+++...
T Consensus        20 ~rP~~l~~ivGq~~~~~~~~~L~~~i~----~-------~~--~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~~   86 (447)
T 3pvs_A           20 MRPENLAQYIGQQHLLAAGKPLPRAIE----A-------GH--LHSMILWGPPGTGKTTLAEVIARYANADVERISAVTS   86 (447)
T ss_dssp             TCCCSTTTCCSCHHHHSTTSHHHHHHH----H-------TC--CCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTTC
T ss_pred             hCCCCHHHhCCcHHHHhchHHHHHHHH----c-------CC--CcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEeccC
Confidence            4578999999999887   55555443    1       11  2589999999999999999999999999999987653


Q ss_pred             CChHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEc--
Q 047029          278 RSNSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT--  349 (455)
Q Consensus       278 ~~~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TT--  349 (455)
                       +...++.++...      ..+.||||||||.+..                .....|+..++.      +.+++|++|  
T Consensus        87 -~~~~ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~----------------~~q~~LL~~le~------~~v~lI~att~  143 (447)
T 3pvs_A           87 -GVKEIREAIERARQNRNAGRRTILFVDEVHRFNK----------------SQQDAFLPHIED------GTITFIGATTE  143 (447)
T ss_dssp             -CHHHHHHHHHHHHHHHHTTCCEEEEEETTTCC----------------------CCHHHHHT------TSCEEEEEESS
T ss_pred             -CHHHHHHHHHHHHHhhhcCCCcEEEEeChhhhCH----------------HHHHHHHHHHhc------CceEEEecCCC
Confidence             345566665433      4689999999998732                123457777764      235666655  


Q ss_pred             CCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          350 NYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       350 N~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      |....++++|++  |+. .+.+..|+.++...++.+++..
T Consensus       144 n~~~~l~~aL~s--R~~-v~~l~~l~~edi~~il~~~l~~  180 (447)
T 3pvs_A          144 NPSFELNSALLS--RAR-VYLLKSLSTEDIEQVLTQAMED  180 (447)
T ss_dssp             CGGGSSCHHHHT--TEE-EEECCCCCHHHHHHHHHHHHHC
T ss_pred             CcccccCHHHhC--cee-EEeeCCcCHHHHHHHHHHHHHH
Confidence            455689999999  886 6789999999999999999875

>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=99.66  E-value=4.1e-16  Score=166.34  Aligned_cols=160  Identities=19%  Similarity=0.172  Sum_probs=112.4

Q ss_pred             CcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh-----
Q 047029          206 FDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN-----  280 (455)
Q Consensus       206 fd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~-----  280 (455)
                      .++++|.+++++.+.+.+.......    .  . ....++|+||||||||++++++|+.++.++..+++..+...     
T Consensus        80 ~~di~G~~~vk~~i~~~~~l~~~~~----~--~-~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g  152 (543)
T 3m6a_A           80 DEEHHGLEKVKERILEYLAVQKLTK----S--L-KGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRG  152 (543)
T ss_dssp             HHHCSSCHHHHHHHHHHHHHHHHSS----S--C-CSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC---------
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhcc----c--C-CCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhh
Confidence            3458899999988876554221111    1  1 35579999999999999999999999999999988764321     


Q ss_pred             ----------HHHHHHHHhhC-CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccC----------
Q 047029          281 ----------SDLRRLLVSTG-NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSC----------  339 (455)
Q Consensus       281 ----------~~l~~ll~~~~-~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~----------  339 (455)
                                ..+...|.... ...|+||||||.+...            ......+.||..||......          
T Consensus       153 ~~~~~ig~~~~~~~~~~~~a~~~~~vl~lDEid~l~~~------------~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~  220 (543)
T 3m6a_A          153 HRRTYVGAMPGRIIQGMKKAGKLNPVFLLDEIDKMSSD------------FRGDPSSAMLEVLDPEQNSSFSDHYIEETF  220 (543)
T ss_dssp             -----------CHHHHHHTTCSSSEEEEEEESSSCC---------------------CCGGGTCTTTTTBCCCSSSCCCC
T ss_pred             HHHHHhccCchHHHHHHHHhhccCCEEEEhhhhhhhhh------------hccCHHHHHHHHHhhhhcceeecccCCeee
Confidence                      22334444442 3459999999988541            11124566777777532110          


Q ss_pred             -CCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          340 -GDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       340 -~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                       -.+++||+|||.++.++|+|++  ||+ .|+++.|+.+++..++++++
T Consensus       221 ~~~~v~iI~ttN~~~~l~~aL~~--R~~-vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          221 DLSKVLFIATANNLATIPGPLRD--RME-IINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             BCSSCEEEEECSSTTTSCHHHHH--HEE-EEECCCCCHHHHHHHHHHTH
T ss_pred             cccceEEEeccCccccCCHHHHh--hcc-eeeeCCCCHHHHHHHHHHHH
Confidence             1457999999999999999999  996 69999999999999999987

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.65  E-value=8.3e-16  Score=153.27  Aligned_cols=152  Identities=18%  Similarity=0.190  Sum_probs=109.8

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHH
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLR  284 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~  284 (455)
                      .++.++|.+++++.+...+..               ++++||+||||||||++|+++|+.++.+++.++++......++.
T Consensus        25 ~~~~i~g~~~~~~~l~~~l~~---------------~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l~   89 (331)
T 2r44_A           25 VGKVVVGQKYMINRLLIGICT---------------GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDLI   89 (331)
T ss_dssp             HTTTCCSCHHHHHHHHHHHHH---------------TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHHH
T ss_pred             hccceeCcHHHHHHHHHHHHc---------------CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhcC
Confidence            467889998888777665542               35899999999999999999999999999988875322222221


Q ss_pred             HHH--H-------hhCC---ceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc-------cccCCCceEE
Q 047029          285 RLL--V-------STGN---RSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL-------WSSCGDERII  345 (455)
Q Consensus       285 ~ll--~-------~~~~---~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~-------~~~~~~~~iv  345 (455)
                      ...  .       ....   .+||||||+|.+..                ...+.|++.|+..       ....+...++
T Consensus        90 g~~~~~~~~~~~~~~~g~l~~~vl~iDEi~~~~~----------------~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~v  153 (331)
T 2r44_A           90 GTMIYNQHKGNFEVKKGPVFSNFILADEVNRSPA----------------KVQSALLECMQEKQVTIGDTTYPLDNPFLV  153 (331)
T ss_dssp             EEEEEETTTTEEEEEECTTCSSEEEEETGGGSCH----------------HHHHHHHHHHHHSEEEETTEEEECCSSCEE
T ss_pred             CceeecCCCCceEeccCcccccEEEEEccccCCH----------------HHHHHHHHHHhcCceeeCCEEEECCCCEEE
Confidence            100  0       0001   37999999998632                3455566666532       2222345778


Q ss_pred             EEEcCCCC-----CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          346 VFTTNYKE-----RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       346 I~TTN~~~-----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      |+|+|+.+     .+++++++  ||++++++++|+.+++.++++..+..
T Consensus       154 iat~np~~~~~~~~l~~~l~~--Rf~~~i~i~~p~~~~~~~il~~~~~~  200 (331)
T 2r44_A          154 LATQNPVEQEGTYPLPEAQVD--RFMMKIHLTYLDKESELEVMRRVSNM  200 (331)
T ss_dssp             EEEECTTCCSCCCCCCHHHHT--TSSEEEECCCCCHHHHHHHHHHHHCT
T ss_pred             EEecCCCcccCcccCCHHHHh--heeEEEEcCCCCHHHHHHHHHhcccc
Confidence            88888554     38999999  99999999999999999999988764

>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=99.65  E-value=1.2e-15  Score=150.06  Aligned_cols=160  Identities=18%  Similarity=0.246  Sum_probs=118.2

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~  275 (455)
                      ..|.+|++++|.+..++.+.+.+..           |.  ..++|||||||||||++++++|+.+     +.+++.++++
T Consensus        11 ~~p~~~~~~~g~~~~~~~l~~~l~~-----------~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   77 (319)
T 2chq_A           11 YRPRTLDEVVGQDEVIQRLKGYVER-----------KN--IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNAS   77 (319)
T ss_dssp             TSCSSGGGSCSCHHHHHHHHTTTTT-----------TC--CCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETT
T ss_pred             cCCCCHHHHhCCHHHHHHHHHHHhC-----------CC--CCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCc
Confidence            5678999999999988877665531           21  2249999999999999999999997     4457788877


Q ss_pred             ccCChHHHHHHHHh----h----CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEE
Q 047029          276 SLRSNSDLRRLLVS----T----GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVF  347 (455)
Q Consensus       276 ~~~~~~~l~~ll~~----~----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~  347 (455)
                      ...+...++..+..    .    ..+.||+|||+|.+..                .....|+..++..    +...++|+
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~----------------~~~~~L~~~le~~----~~~~~~i~  137 (319)
T 2chq_A           78 DERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTA----------------DAQAALRRTMEMY----SKSCRFIL  137 (319)
T ss_dssp             STTCTTTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCH----------------HHHHTTGGGTSSS----SSSEEEEE
T ss_pred             cccChHHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCH----------------HHHHHHHHHHHhc----CCCCeEEE
Confidence            65433333322221    1    3478999999998742                2345566666543    35678899


Q ss_pred             EcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          348 TTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       348 TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      +||.++.+++++.+  |+. .++++.|+.++...++..++...+..+.+
T Consensus       138 ~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~  183 (319)
T 2chq_A          138 SCNYVSRIIEPIQS--RCA-VFRFKPVPKEAMKKRLLEICEKEGVKITE  183 (319)
T ss_dssp             EESCGGGSCHHHHT--TCE-EEECCCCCHHHHHHHHHHHHHTTCCCBCH
T ss_pred             EeCChhhcchHHHh--hCe-EEEecCCCHHHHHHHHHHHHHHcCCCCCH
Confidence            99999999999999  885 89999999999999999887655444433

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.63  E-value=2.7e-15  Score=147.59  Aligned_cols=160  Identities=18%  Similarity=0.275  Sum_probs=115.5

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHHH
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDLR  284 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l~  284 (455)
                      .++|.+..++.+...+......-.    ....+...+||+||||||||++|+++|+.+   +.+++.++++.+.......
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~----~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~   93 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLK----DPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVS   93 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCS----CTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCC----CCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccHH
Confidence            577888888888887765432100    011123479999999999999999999998   5669999988764433222


Q ss_pred             HHH------------------HhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCC------
Q 047029          285 RLL------------------VSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCG------  340 (455)
Q Consensus       285 ~ll------------------~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~------  340 (455)
                      .++                  .....++||||||+|.+..                ...+.|+..++......+      
T Consensus        94 ~l~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~~----------------~~~~~Ll~~le~~~~~~~~~~~~~  157 (311)
T 4fcw_A           94 RLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHP----------------DVFNILLQMLDDGRLTDSHGRTVD  157 (311)
T ss_dssp             HHHCCCTTSTTTTTCCHHHHHHHHCSSEEEEEETGGGSCH----------------HHHHHHHHHHHHSEEECTTSCEEE
T ss_pred             HhcCCCCccccccccchHHHHHHhCCCeEEEEeChhhcCH----------------HHHHHHHHHHhcCEEEcCCCCEEE
Confidence            222                  1123458999999998732                455677777764321111      


Q ss_pred             -CceEEEEEcCC--------------------------CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          341 -DERIIVFTTNY--------------------------KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       341 -~~~ivI~TTN~--------------------------~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                       .+.++|+|||.                          ...++|+|++  ||+..+.+++|+.+++..|++.++..
T Consensus       158 ~~~~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~--R~~~~~~~~p~~~~~~~~i~~~~l~~  231 (311)
T 4fcw_A          158 FRNTVIIMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQMSY  231 (311)
T ss_dssp             CTTEEEEEEESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHTHH
T ss_pred             CCCcEEEEecccCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHh--cCCeEEEeCCCCHHHHHHHHHHHHHH
Confidence             35789999998                          5578899998  99999999999999999999998864

>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=99.63  E-value=6.1e-15  Score=145.21  Aligned_cols=160  Identities=14%  Similarity=0.210  Sum_probs=119.2

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~  275 (455)
                      ..|.+|++++|.+..++.+.+.+..           | ..+ ++|||||||||||++++++|+.+     +.+++.++++
T Consensus        15 ~~p~~~~~~~g~~~~~~~l~~~l~~-----------~-~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   81 (323)
T 1sxj_B           15 YRPQVLSDIVGNKETIDRLQQIAKD-----------G-NMP-HMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNAS   81 (323)
T ss_dssp             TCCSSGGGCCSCTHHHHHHHHHHHS-----------C-CCC-CEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTT
T ss_pred             cCCCCHHHHHCCHHHHHHHHHHHHc-----------C-CCC-eEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCc
Confidence            4678999999999988887776531           2 223 39999999999999999999997     4567778877


Q ss_pred             ccCChHHHHHHHHhh---------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEE
Q 047029          276 SLRSNSDLRRLLVST---------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIV  346 (455)
Q Consensus       276 ~~~~~~~l~~ll~~~---------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI  346 (455)
                      ...+...++.++...         ..+.||+|||+|.+..                .....|+..++..    +....+|
T Consensus        82 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~----------------~~~~~L~~~le~~----~~~~~~i  141 (323)
T 1sxj_B           82 DDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA----------------GAQQALRRTMELY----SNSTRFA  141 (323)
T ss_dssp             SCCSHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCH----------------HHHHTTHHHHHHT----TTTEEEE
T ss_pred             cccChHHHHHHHHHHHhccccCCCCCceEEEEECcccCCH----------------HHHHHHHHHHhcc----CCCceEE
Confidence            654555565554321         2378999999998742                2344566666542    2457888


Q ss_pred             EEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       347 ~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      ++||.++.+++++.+  |+. .++++.|+.++...++..++...+..+.+
T Consensus       142 l~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~  188 (323)
T 1sxj_B          142 FACNQSNKIIEPLQS--QCA-ILRYSKLSDEDVLKRLLQIIKLEDVKYTN  188 (323)
T ss_dssp             EEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCH
T ss_pred             EEeCChhhchhHHHh--hce-EEeecCCCHHHHHHHHHHHHHHcCCCCCH
Confidence            899999999999999  775 89999999999999999887655444433

>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=99.62  E-value=2.3e-15  Score=150.45  Aligned_cols=162  Identities=19%  Similarity=0.220  Sum_probs=118.1

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC------CcEEEEec
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK------FDIYDMEL  274 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~------~~v~~l~~  274 (455)
                      ..|.+|++++|.+++++.+...+.    .       |.  ..++||+||||||||++++++|+.++      ..+..+++
T Consensus        31 ~~p~~~~~i~g~~~~~~~l~~~l~----~-------~~--~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~   97 (353)
T 1sxj_D           31 YRPKNLDEVTAQDHAVTVLKKTLK----S-------AN--LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNA   97 (353)
T ss_dssp             TCCSSTTTCCSCCTTHHHHHHHTT----C-------TT--CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECS
T ss_pred             cCCCCHHHhhCCHHHHHHHHHHHh----c-------CC--CCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEcc
Confidence            468899999999998887766553    1       11  23499999999999999999999864      46778887


Q ss_pred             cccCChHHHHHHH---Hh---------------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc
Q 047029          275 ASLRSNSDLRRLL---VS---------------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW  336 (455)
Q Consensus       275 ~~~~~~~~l~~ll---~~---------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~  336 (455)
                      ++......++..+   ..               ...+.||+|||+|.+..                ...+.|+..++...
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~----------------~~~~~Ll~~le~~~  161 (353)
T 1sxj_D           98 SDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTA----------------DAQSALRRTMETYS  161 (353)
T ss_dssp             SSCCCHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCH----------------HHHHHHHHHHHHTT
T ss_pred             ccccchHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCH----------------HHHHHHHHHHHhcC
Confidence            7654444443332   11               12457999999998743                23456777776542


Q ss_pred             ccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHH
Q 047029          337 SSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEI  398 (455)
Q Consensus       337 ~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei  398 (455)
                          ....+|++||+++.+++++.+  |+. .++++.|+.++...++...+...+..+.++.
T Consensus       162 ----~~~~~il~~~~~~~l~~~l~s--R~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~  216 (353)
T 1sxj_D          162 ----GVTRFCLICNYVTRIIDPLAS--QCS-KFRFKALDASNAIDRLRFISEQENVKCDDGV  216 (353)
T ss_dssp             ----TTEEEEEEESCGGGSCHHHHH--HSE-EEECCCCCHHHHHHHHHHHHHTTTCCCCHHH
T ss_pred             ----CCceEEEEeCchhhCcchhhc--cCc-eEEeCCCCHHHHHHHHHHHHHHhCCCCCHHH
Confidence                346677889999999999999  886 8999999999999999888765544444433

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.62  E-value=3.1e-15  Score=150.71  Aligned_cols=165  Identities=18%  Similarity=0.120  Sum_probs=115.8

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---------CCcEEE
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---------KFDIYD  271 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---------~~~v~~  271 (455)
                      .+...+++++|.++..+.+.+.+...+.         ...+++++|+||||||||++++++++.+         +..++.
T Consensus        13 ~~~~~p~~~~gr~~~~~~l~~~l~~~~~---------~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~   83 (387)
T 2v1u_A           13 LPDYVPDVLPHREAELRRLAEVLAPALR---------GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIY   83 (387)
T ss_dssp             STTCCCSCCTTCHHHHHHHHHTTGGGTS---------SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             CCccCCCCCCCHHHHHHHHHHHHHHHHc---------CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEE
Confidence            3444568899998888888776643221         1336689999999999999999999998         788888


Q ss_pred             EeccccCCh----------------------HH-HHHHHHh---hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhH
Q 047029          272 MELASLRSN----------------------SD-LRRLLVS---TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTL  325 (455)
Q Consensus       272 l~~~~~~~~----------------------~~-l~~ll~~---~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~l  325 (455)
                      +++....+.                      .. +..++..   ...+.||+|||+|.+...           ...+..+
T Consensus        84 i~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~-----------~~~~~~l  152 (387)
T 2v1u_A           84 VNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKR-----------PGGQDLL  152 (387)
T ss_dssp             EETTTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHS-----------TTHHHHH
T ss_pred             EECCcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhccc-----------CCCChHH
Confidence            887654321                      12 2222222   234789999999988540           0123455


Q ss_pred             hhhhhhhhcccccCCCceEEEEEcCCC---CCCCccccCCCceeE-EEEeCCCCHHHHHHHHHHhhcc
Q 047029          326 SGLLNFVDGLWSSCGDERIIVFTTNYK---ERLDPALLRPGRMDM-HIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       326 s~LL~~ldg~~~~~~~~~ivI~TTN~~---~~Ld~allRpGR~d~-~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      ..+++.++....  +.++.+|++||.+   +.+++++.+  ||.. .++++.++.++...++..++..
T Consensus       153 ~~l~~~~~~~~~--~~~~~~I~~t~~~~~~~~l~~~l~~--r~~~~~i~l~~l~~~~~~~il~~~~~~  216 (387)
T 2v1u_A          153 YRITRINQELGD--RVWVSLVGITNSLGFVENLEPRVKS--SLGEVELVFPPYTAPQLRDILETRAEE  216 (387)
T ss_dssp             HHHHHGGGCC-------CEEEEECSCSTTSSSSCHHHHT--TTTSEECCBCCCCHHHHHHHHHHHHHH
T ss_pred             HhHhhchhhcCC--CceEEEEEEECCCchHhhhCHHHHh--cCCCeEEeeCCCCHHHHHHHHHHHHHh
Confidence            555655543310  2467899999987   788999998  8875 8999999999999999988753

>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=99.62  E-value=5.2e-15  Score=145.93  Aligned_cols=158  Identities=15%  Similarity=0.226  Sum_probs=115.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC-----CcEEEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK-----FDIYDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~-----~~v~~l~~~  275 (455)
                      ..|.+|++++|.++.++.+.+.+..           |.  ..++|||||||||||++++++|+.+.     ..++.++++
T Consensus        19 ~~p~~~~~~~g~~~~~~~l~~~l~~-----------~~--~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~   85 (327)
T 1iqp_A           19 YRPQRLDDIVGQEHIVKRLKHYVKT-----------GS--MPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNAS   85 (327)
T ss_dssp             TCCCSTTTCCSCHHHHHHHHHHHHH-----------TC--CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETT
T ss_pred             cCCCCHHHhhCCHHHHHHHHHHHHc-----------CC--CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeecc
Confidence            5678999999999988887766542           21  22599999999999999999999973     347777766


Q ss_pred             ccCChHHHHHHHHh----h----CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEE
Q 047029          276 SLRSNSDLRRLLVS----T----GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVF  347 (455)
Q Consensus       276 ~~~~~~~l~~ll~~----~----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~  347 (455)
                      +..+...++..+..    .    ..+.||+|||+|.+..                ...+.|+..++..    +....+|+
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~----------------~~~~~L~~~le~~----~~~~~~i~  145 (327)
T 1iqp_A           86 DERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQ----------------DAQQALRRTMEMF----SSNVRFIL  145 (327)
T ss_dssp             CHHHHHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCH----------------HHHHHHHHHHHHT----TTTEEEEE
T ss_pred             ccCchHHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCH----------------HHHHHHHHHHHhc----CCCCeEEE
Confidence            54222222222211    1    3578999999998732                2345667666643    24578888


Q ss_pred             EcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc
Q 047029          348 TTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM  394 (455)
Q Consensus       348 TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l  394 (455)
                      +||.++.+++++.+  |+. .++++.++.++...++..++...+...
T Consensus       146 ~~~~~~~l~~~l~s--r~~-~~~~~~l~~~~~~~~l~~~~~~~~~~~  189 (327)
T 1iqp_A          146 SCNYSSKIIEPIQS--RCA-IFRFRPLRDEDIAKRLRYIAENEGLEL  189 (327)
T ss_dssp             EESCGGGSCHHHHH--TEE-EEECCCCCHHHHHHHHHHHHHTTTCEE
T ss_pred             EeCCccccCHHHHh--hCc-EEEecCCCHHHHHHHHHHHHHhcCCCC
Confidence            99999999999998  886 799999999999999988876544333

>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=99.62  E-value=1.4e-15  Score=151.27  Aligned_cols=176  Identities=13%  Similarity=0.205  Sum_probs=116.0

Q ss_pred             cCCCCCCcccc-cCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          200 LDHPSTFDTLA-MDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       200 ~~~p~tfd~l~-g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      +.+..+|++++ |... ... ...+..+...+       ....++++||||||||||++++++++.+   +.+++.+++.
T Consensus         4 l~~~~~f~~fv~g~~~-~~a-~~~~~~~~~~~-------~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~   74 (324)
T 1l8q_A            4 LNPKYTLENFIVGEGN-RLA-YEVVKEALENL-------GSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSAD   74 (324)
T ss_dssp             CCTTCCSSSCCCCTTT-HHH-HHHHHHHHHTT-------TTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CCCCCCcccCCCCCcH-HHH-HHHHHHHHhCc-------CCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHH
Confidence            56677999997 4332 211 22233333332       1235689999999999999999999999   8999999887


Q ss_pred             ccCCh-------HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEE
Q 047029          276 SLRSN-------SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFT  348 (455)
Q Consensus       276 ~~~~~-------~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~T  348 (455)
                      .+...       ...........++.||||||++.+..              .......++..++.....  +.++|+.+
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~vL~iDEi~~l~~--------------~~~~~~~l~~~l~~~~~~--~~~iii~~  138 (324)
T 1l8q_A           75 DFAQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFLSG--------------KERTQIEFFHIFNTLYLL--EKQIILAS  138 (324)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGGTT--------------CHHHHHHHHHHHHHHHHT--TCEEEEEE
T ss_pred             HHHHHHHHHHHcCcHHHHHHHhcCCCEEEEcCcccccC--------------ChHHHHHHHHHHHHHHHC--CCeEEEEe
Confidence            65210       01111122233578999999998742              012334455555544332  34566666


Q ss_pred             cCCCC---CCCccccCCCcee--EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhc
Q 047029          349 TNYKE---RLDPALLRPGRMD--MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIK  403 (455)
Q Consensus       349 TN~~~---~Ld~allRpGR~d--~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~  403 (455)
                      +|.+.   .++++|++  ||+  ..+++++ +.+++..+++.++...+..+.+++.+.+.
T Consensus       139 ~~~~~~l~~l~~~L~s--R~~~~~~i~l~~-~~~e~~~il~~~~~~~~~~l~~~~l~~l~  195 (324)
T 1l8q_A          139 DRHPQKLDGVSDRLVS--RFEGGILVEIEL-DNKTRFKIIKEKLKEFNLELRKEVIDYLL  195 (324)
T ss_dssp             SSCGGGCTTSCHHHHH--HHHTSEEEECCC-CHHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             cCChHHHHHhhhHhhh--cccCceEEEeCC-CHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence            66665   68999999  886  7899999 99999999999987655555555544443

>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=99.62  E-value=1.8e-14  Score=144.96  Aligned_cols=161  Identities=20%  Similarity=0.291  Sum_probs=119.5

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      ..|.+|++++|.++.++.+.+.+..           | ..+..+||+||||||||++++++|+.++.             
T Consensus        10 ~rp~~~~~~vg~~~~~~~L~~~l~~-----------~-~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~   77 (373)
T 1jr3_A           10 WRPQTFADVVGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCD   77 (373)
T ss_dssp             TCCCSTTTSCSCHHHHHHHHHHHHH-----------T-CCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSH
T ss_pred             hCCCchhhccCcHHHHHHHHHHHHh-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccH
Confidence            4578899999999988888776641           1 22457999999999999999999999854             


Q ss_pred             -----------cEEEEeccccCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          268 -----------DIYDMELASLRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       268 -----------~v~~l~~~~~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                 +++.++.........++.++....      .+.||+|||+|.+..                ...+.|+.
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~----------------~~~~~Ll~  141 (373)
T 1jr3_A           78 NCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSR----------------HSFNALLK  141 (373)
T ss_dssp             HHHHHHTSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCH----------------HHHHHHHH
T ss_pred             HHHHHhccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcH----------------HHHHHHHH
Confidence                       345555443223345666665432      468999999998732                34566777


Q ss_pred             hhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchH
Q 047029          331 FVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFD  396 (455)
Q Consensus       331 ~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~  396 (455)
                      .++..    +..+++|++||.+..+++++.+  |+ ..++++.|+.++...++..++...+....+
T Consensus       142 ~le~~----~~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~l~~~~~~~~l~~~~~~~~~~~~~  200 (373)
T 1jr3_A          142 TLEEP----PEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNEEHIAHEP  200 (373)
T ss_dssp             HHHSC----CSSEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTCCBCH
T ss_pred             HHhcC----CCceEEEEEeCChHhCcHHHHh--he-eEeeCCCCCHHHHHHHHHHHHHHcCCCCCH
Confidence            77653    3568889999999999999998  77 689999999999999999888655444433

>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=99.61  E-value=1.5e-14  Score=146.90  Aligned_cols=174  Identities=20%  Similarity=0.246  Sum_probs=112.7

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHh-----------------hhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYS-----------------RVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~-----------------~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      .++|++++|+.|...+...+.+.....                 .-....+.++||+||||||||++|+++|+.++.+++
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~  101 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIA  101 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEE
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            478999999999988754443322110                 011234668999999999999999999999999999


Q ss_pred             EEeccccCC--------hHHHHHHHHhh------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc
Q 047029          271 DMELASLRS--------NSDLRRLLVST------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW  336 (455)
Q Consensus       271 ~l~~~~~~~--------~~~l~~ll~~~------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~  336 (455)
                      .+++..+..        ...+..++...      ..++||||||||.+...+  .......+.......+.|+..||+..
T Consensus       102 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~--~~~~~~~~~~~~~~~~~Ll~~le~~~  179 (376)
T 1um8_A          102 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLS--ENRSITRDVSGEGVQQALLKIVEGSL  179 (376)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC----------------CHHHHHHHHHHHHCCE
T ss_pred             EecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhhc--CCCceecccchHHHHHHHHHHhhccc
Confidence            999887631        23344554432      257899999999986421  11111111122236778888888642


Q ss_pred             c---c--------------CCCceEEEEEcCCC-----------------------------------------CCCCcc
Q 047029          337 S---S--------------CGDERIIVFTTNYK-----------------------------------------ERLDPA  358 (455)
Q Consensus       337 ~---~--------------~~~~~ivI~TTN~~-----------------------------------------~~Ld~a  358 (455)
                      -   .              ...++++|+|||..                                         ..+.|+
T Consensus       180 ~~~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~p~  259 (376)
T 1um8_A          180 VNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPE  259 (376)
T ss_dssp             EC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHH
T ss_pred             eecccccccccCCcceEEEecCCeEEEecCCHHHHHHHHHHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcCCChH
Confidence            0   0              01346778887721                                         124566


Q ss_pred             ccCCCceeEEEEeCCCCHHHHHHHHHH
Q 047029          359 LLRPGRMDMHIHMSYLTPGGFKILAFN  385 (455)
Q Consensus       359 llRpGR~d~~I~~~~p~~~~~~~L~~~  385 (455)
                      |+.  |++..+.|+.++.++...++..
T Consensus       260 l~~--R~~~~i~~~~l~~~~l~~i~~~  284 (376)
T 1um8_A          260 LIG--RLPVLSTLDSISLEAMVDILQK  284 (376)
T ss_dssp             HHT--TCCEEEECCCCCHHHHHHHHHS
T ss_pred             Hhc--CCCceeeccCCCHHHHHHHHhh
Confidence            666  9989999999999998888863

>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=99.61  E-value=1.8e-14  Score=145.65  Aligned_cols=151  Identities=15%  Similarity=0.231  Sum_probs=112.0

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----------CCcEEEEecc
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----------KFDIYDMELA  275 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----------~~~v~~l~~~  275 (455)
                      ++++|.++..+++.+.+..++..         ..+++++|+||||||||++++++++.+           +..++.+++.
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~---------~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~   90 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKN---------EVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCR   90 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTT---------CCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcC---------CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECc
Confidence            78999999999998888765543         225689999999999999999999998           8899999876


Q ss_pred             ccC-Ch-----------------------HH-HHHHHHhhC-CceEEEEecccchhhhhhhcCCCCCCCCcchhh-Hhhh
Q 047029          276 SLR-SN-----------------------SD-LRRLLVSTG-NRSILVIEDIDCSIELENRQCGGGYDENNSQVT-LSGL  328 (455)
Q Consensus       276 ~~~-~~-----------------------~~-l~~ll~~~~-~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~-ls~L  328 (455)
                      ... +.                       .. +..++.... .+.||+|||+|.+..            ...... +..|
T Consensus        91 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~------------~~~~~~~l~~l  158 (384)
T 2qby_B           91 EVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVK------------RRGGDIVLYQL  158 (384)
T ss_dssp             HHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHH------------STTSHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhcc------------CCCCceeHHHH
Confidence            543 21                       11 222222222 233999999998853            111223 4444


Q ss_pred             hhhhhcccccCCCceEEEEEcCCC---CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          329 LNFVDGLWSSCGDERIIVFTTNYK---ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       329 L~~ldg~~~~~~~~~ivI~TTN~~---~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      +...        .++.+|+|||.+   +.+++++.+  ||...|++++++.++...++..++.
T Consensus       159 ~~~~--------~~~~iI~~t~~~~~~~~l~~~l~s--r~~~~i~l~~l~~~~~~~il~~~~~  211 (384)
T 2qby_B          159 LRSD--------ANISVIMISNDINVRDYMEPRVLS--SLGPSVIFKPYDAEQLKFILSKYAE  211 (384)
T ss_dssp             HTSS--------SCEEEEEECSSTTTTTTSCHHHHH--TCCCEEEECCCCHHHHHHHHHHHHH
T ss_pred             hcCC--------cceEEEEEECCCchHhhhCHHHHh--cCCCeEEECCCCHHHHHHHHHHHHH
Confidence            4432        457889999977   788999998  8877999999999999999998875

>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=99.60  E-value=9.2e-14  Score=139.21  Aligned_cols=178  Identities=21%  Similarity=0.226  Sum_probs=123.1

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN  280 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~  280 (455)
                      -.|.+|+.++|.+.+++.+...+..-..+       | .++..++|+||||||||||++++|+.++.++...........
T Consensus        19 lr~~~l~~~~g~~~~~~~l~~~i~~~~~~-------~-~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~~~   90 (334)
T 1in4_A           19 LRPKSLDEFIGQENVKKKLSLALEAAKMR-------G-EVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQ   90 (334)
T ss_dssp             TSCSSGGGCCSCHHHHHHHHHHHHHHHHH-------T-CCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSH
T ss_pred             cCCccHHHccCcHHHHHHHHHHHHHHHhc-------C-CCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhcCH
Confidence            45779999999877766655444321111       2 234679999999999999999999999998877766555556


Q ss_pred             HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc------cc--------CCCceEEE
Q 047029          281 SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW------SS--------CGDERIIV  346 (455)
Q Consensus       281 ~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~------~~--------~~~~~ivI  346 (455)
                      .++..++.....+.|++|||++.+..                .....|+..++...      ..        .-....++
T Consensus        91 ~~l~~~~~~~~~~~v~~iDE~~~l~~----------------~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li  154 (334)
T 1in4_A           91 GDMAAILTSLERGDVLFIDEIHRLNK----------------AVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLV  154 (334)
T ss_dssp             HHHHHHHHHCCTTCEEEEETGGGCCH----------------HHHHHHHHHHHTSCCCC---------------CCCEEE
T ss_pred             HHHHHHHHHccCCCEEEEcchhhcCH----------------HHHHHHHHHHHhcccceeeccCcccccccccCCCeEEE
Confidence            67777666666788999999998743                11122222222110      00        00235677


Q ss_pred             EEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH-HHHhhcc
Q 047029          347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE-IEELIKE  404 (455)
Q Consensus       347 ~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e-i~~ll~~  404 (455)
                      .+||.+..|++++++  ||...+.+++++.+++..++++........+.++ +..++..
T Consensus       155 ~at~~~~~Ls~~l~s--R~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~~~~~~~~ia~~  211 (334)
T 1in4_A          155 GATTRSGLLSSPLRS--RFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKR  211 (334)
T ss_dssp             EEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHT
T ss_pred             EecCCcccCCHHHHH--hcCceeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHh
Confidence            799999999999999  9999999999999999999998876544444433 3333333

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.59  E-value=1.2e-14  Score=152.26  Aligned_cols=146  Identities=19%  Similarity=0.220  Sum_probs=105.3

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEE
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYD  271 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~  271 (455)
                      .|..|+.++|.++..+.+++.+..             ..+.++||+||||||||++|+++|+.+          +.+++.
T Consensus       175 r~~~ld~iiGr~~~i~~l~~~l~r-------------~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~  241 (468)
T 3pxg_A          175 KEDSLDPVIGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMT  241 (468)
T ss_dssp             TSSCSCCCCCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEEC
T ss_pred             hcCCCCCccCcHHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE
Confidence            466799999999888887776541             235689999999999999999999997          778888


Q ss_pred             Eecccc-C--ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEE
Q 047029          272 MELASL-R--SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIV  346 (455)
Q Consensus       272 l~~~~~-~--~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI  346 (455)
                      ++++.. .  ....++.++...  ..+.|||||  .   .            .   ...+.|+..++.      +.+.+|
T Consensus       242 l~~~~~~~g~~e~~~~~~~~~~~~~~~~iLfiD--~---~------------~---~a~~~L~~~L~~------g~v~vI  295 (468)
T 3pxg_A          242 LDMGTKYRGEFEDRLKKVMDEIRQAGNIILFID--A---A------------I---DASNILKPSLAR------GELQCI  295 (468)
T ss_dssp             C----------CTTHHHHHHHHHTCCCCEEEEC--C--------------------------CCCTTS------SSCEEE
T ss_pred             eeCCccccchHHHHHHHHHHHHHhcCCeEEEEe--C---c------------h---hHHHHHHHhhcC------CCEEEE
Confidence            887621 1  124556666544  357899999  1   0            0   122334444431      468899


Q ss_pred             EEcCCCC-----CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          347 FTTNYKE-----RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       347 ~TTN~~~-----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      ++||..+     .+|+++.|  ||.. |.++.|+.+++..+++.++..
T Consensus       296 ~at~~~e~~~~~~~~~al~~--Rf~~-i~v~~p~~e~~~~iL~~~~~~  340 (468)
T 3pxg_A          296 GATTLDEYRKYIEKDAALER--RFQP-IQVDQPSVDESIQILQGLRDR  340 (468)
T ss_dssp             EECCTTTTHHHHTTCSHHHH--SEEE-EECCCCCHHHHHHHHHHTTTT
T ss_pred             ecCCHHHHHHHhhcCHHHHH--hCcc-ceeCCCCHHHHHHHHHHHHHH
Confidence            9999887     69999999  9984 999999999999999988765

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.59  E-value=2.2e-15  Score=135.84  Aligned_cols=144  Identities=20%  Similarity=0.259  Sum_probs=98.8

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEEE
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYDM  272 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~l  272 (455)
                      |.+|++++|.+...+.+.+.+..             ..++++||+||||||||++++++|+.+          +.+++.+
T Consensus        18 ~~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~   84 (187)
T 2p65_A           18 AGKLDPVIGRDTEIRRAIQILSR-------------RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSL   84 (187)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEE
T ss_pred             ccccchhhcchHHHHHHHHHHhC-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEE
Confidence            67899999998877777665531             236689999999999999999999997          7788888


Q ss_pred             eccccC----C----hHHHHHHHHh---hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCC
Q 047029          273 ELASLR----S----NSDLRRLLVS---TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGD  341 (455)
Q Consensus       273 ~~~~~~----~----~~~l~~ll~~---~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~  341 (455)
                      ++..+.    .    ...+..++..   ...+.||+|||+|.+.....  .     ..........|...++.      .
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~--~-----~~~~~~~~~~l~~~~~~------~  151 (187)
T 2p65_A           85 DLSSLIAGAKYRGDFEERLKSILKEVQDAEGQVVMFIDEIHTVVGAGA--V-----AEGALDAGNILKPMLAR------G  151 (187)
T ss_dssp             CHHHHHHHCCSHHHHHHHHHHHHHHHHHTTTSEEEEETTGGGGSSSSS--S-----CTTSCCTHHHHHHHHHT------T
T ss_pred             eHHHhhcCCCchhHHHHHHHHHHHHHHhcCCceEEEEeCHHHhccccc--c-----cccchHHHHHHHHHHhc------C
Confidence            776542    1    1224444432   34678999999998853110  0     00111222333333332      4


Q ss_pred             ceEEEEEcCCCC-----CCCccccCCCceeEEEEeCCCC
Q 047029          342 ERIIVFTTNYKE-----RLDPALLRPGRMDMHIHMSYLT  375 (455)
Q Consensus       342 ~~ivI~TTN~~~-----~Ld~allRpGR~d~~I~~~~p~  375 (455)
                      .+++|++||.++     .+|+++++  ||+. |+++.|+
T Consensus       152 ~~~ii~~~~~~~~~~~~~~~~~l~~--R~~~-i~i~~p~  187 (187)
T 2p65_A          152 ELRCIGATTVSEYRQFIEKDKALER--RFQQ-ILVEQPS  187 (187)
T ss_dssp             CSCEEEEECHHHHHHHTTTCHHHHH--HEEE-EECCSCC
T ss_pred             CeeEEEecCHHHHHHHHhccHHHHH--hcCc-ccCCCCC
Confidence            577889998765     68999999  9984 9999885

>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=99.58  E-value=1.9e-14  Score=149.67  Aligned_cols=172  Identities=17%  Similarity=0.282  Sum_probs=112.4

Q ss_pred             ccCCCCCCcccc-cCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEE
Q 047029          199 NLDHPSTFDTLA-MDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDM  272 (455)
Q Consensus       199 ~~~~p~tfd~l~-g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l  272 (455)
                      .+++..+|++++ |.....  ....+..+...+      |.  ..+++||||||||||+|++++|+++     +.+++.+
T Consensus        97 ~l~~~~tfd~fv~g~~n~~--a~~~~~~~a~~~------~~--~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v  166 (440)
T 2z4s_A           97 PLNPDYTFENFVVGPGNSF--AYHAALEVAKHP------GR--YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYI  166 (440)
T ss_dssp             CCCTTCSGGGCCCCTTTHH--HHHHHHHHHHST------TS--SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEE
T ss_pred             CCCCCCChhhcCCCCchHH--HHHHHHHHHhCC------CC--CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEe
Confidence            466667999988 543322  223333333322      21  5689999999999999999999998     8889988


Q ss_pred             eccccCCh-------HHHHHHHHhhC-CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceE
Q 047029          273 ELASLRSN-------SDLRRLLVSTG-NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERI  344 (455)
Q Consensus       273 ~~~~~~~~-------~~l~~ll~~~~-~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~i  344 (455)
                      ++..+...       .....+..... ++.||||||++.+..              ...+...|+..++.+...  +..+
T Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~IDEi~~l~~--------------~~~~q~~l~~~l~~l~~~--~~~i  230 (440)
T 2z4s_A          167 TSEKFLNDLVDSMKEGKLNEFREKYRKKVDILLIDDVQFLIG--------------KTGVQTELFHTFNELHDS--GKQI  230 (440)
T ss_dssp             EHHHHHHHHHHHHHTTCHHHHHHHHTTTCSEEEEECGGGGSS--------------CHHHHHHHHHHHHHHHTT--TCEE
T ss_pred             eHHHHHHHHHHHHHcccHHHHHHHhcCCCCEEEEeCcccccC--------------ChHHHHHHHHHHHHHHHC--CCeE
Confidence            87764210       01112222334 789999999998742              012334455555554332  3345


Q ss_pred             EEEEcCCCCC---CCccccCCCcee--EEEEeCCCCHHHHHHHHHHhhcccCCCchHHH
Q 047029          345 IVFTTNYKER---LDPALLRPGRMD--MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEI  398 (455)
Q Consensus       345 vI~TTN~~~~---Ld~allRpGR~d--~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei  398 (455)
                      ||.|.+.+..   ++++|++  ||.  ..+.++.|+.+++..++...+...+..+.+++
T Consensus       231 Iitt~~~~~~l~~l~~~L~s--R~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~e~  287 (440)
T 2z4s_A          231 VICSDREPQKLSEFQDRLVS--RFQMGLVAKLEPPDEETRKSIARKMLEIEHGELPEEV  287 (440)
T ss_dssp             EEEESSCGGGCSSCCHHHHH--HHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCCTTH
T ss_pred             EEEECCCHHHHHHHHHHHHh--hccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHH
Confidence            5544444544   8899999  886  78999999999999999998865444444333

>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=99.57  E-value=6.4e-15  Score=147.18  Aligned_cols=154  Identities=21%  Similarity=0.218  Sum_probs=101.3

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-------------  267 (455)
                      ..|.+|++++|.+.+++.+...+    ..+         ...++|||||||||||++|+++|+.++.             
T Consensus        18 ~~~~~f~~i~G~~~~~~~l~~~~----~~~---------~~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~   84 (350)
T 1g8p_A           18 RPVFPFSAIVGQEDMKLALLLTA----VDP---------GIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPN   84 (350)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHH----HCG---------GGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSS
T ss_pred             CCCCCchhccChHHHHHHHHHHh----hCC---------CCceEEEECCCCccHHHHHHHHHHhCccccccccccccccc
Confidence            45678999999988776542221    111         1447999999999999999999999863             


Q ss_pred             --------------------cEEEEeccccCChHH------HHHHHHhh-----------CCceEEEEecccchhhhhhh
Q 047029          268 --------------------DIYDMELASLRSNSD------LRRLLVST-----------GNRSILVIEDIDCSIELENR  310 (455)
Q Consensus       268 --------------------~v~~l~~~~~~~~~~------l~~ll~~~-----------~~~~IL~iDEiD~l~~~~~~  310 (455)
                                          +++.+..+.  +...      +.+.+...           ..++||||||||.+..    
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~~----  158 (350)
T 1g8p_A           85 VEMIPDWATVLSTNVIRKPTPVVDLPLGV--SEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLED----  158 (350)
T ss_dssp             GGGSCTTCCCSCCCEEEECCCEEEECTTC--CHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCH----
T ss_pred             cccccchhhhhccccccCCCcccccCCCc--chhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCCH----
Confidence                                122111110  1111      12222111           1368999999998743    


Q ss_pred             cCCCCCCCCcchhhHhhhhhhhhcc---cccC------CCceEEEEEcCCCC-CCCccccCCCceeEEEEeCCC-CHHHH
Q 047029          311 QCGGGYDENNSQVTLSGLLNFVDGL---WSSC------GDERIIVFTTNYKE-RLDPALLRPGRMDMHIHMSYL-TPGGF  379 (455)
Q Consensus       311 ~~~~~~~~~~~~~~ls~LL~~ldg~---~~~~------~~~~ivI~TTN~~~-~Ld~allRpGR~d~~I~~~~p-~~~~~  379 (455)
                                  ..+..|+..++.-   ....      +..+++|+|||..+ .++++|++  ||+.++++++| +.+.+
T Consensus       159 ------------~~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~--R~~~~~~l~~~~~~~~~  224 (350)
T 1g8p_A          159 ------------HIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVETR  224 (350)
T ss_dssp             ------------HHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHHHH
T ss_pred             ------------HHHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCCCCCCHHHHh--hcceEEEcCCCCcHHHH
Confidence                        2345566666531   1111      13578899999754 89999999  99999999999 67777


Q ss_pred             HHHHHHhh
Q 047029          380 KILAFNYL  387 (455)
Q Consensus       380 ~~L~~~~l  387 (455)
                      ..|++..+
T Consensus       225 ~~il~~~~  232 (350)
T 1g8p_A          225 VEVIRRRD  232 (350)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            78887754

>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=99.56  E-value=2.6e-14  Score=160.22  Aligned_cols=156  Identities=19%  Similarity=0.226  Sum_probs=104.1

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEEE
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYDM  272 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~l  272 (455)
                      |.+|+.++|.++..+.+++.+.    +         ..++++||+||||||||++++++|+.+          +.+++.+
T Consensus       166 ~~~ld~viGr~~~i~~l~~~l~----~---------~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l  232 (854)
T 1qvr_A          166 EGKLDPVIGRDEEIRRVIQILL----R---------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSL  232 (854)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHH----C---------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEE
T ss_pred             cCCCcccCCcHHHHHHHHHHHh----c---------CCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEe
Confidence            5689999999887777776553    1         235689999999999999999999998          8889999


Q ss_pred             eccccCC--------hHHHHHHHHhh---CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCC
Q 047029          273 ELASLRS--------NSDLRRLLVST---GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGD  341 (455)
Q Consensus       273 ~~~~~~~--------~~~l~~ll~~~---~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~  341 (455)
                      +++.+..        ...+..++...   ..++||||||+|.+.+.....        ......+.|...++.      +
T Consensus       233 ~~~~l~~g~~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~--------g~~~~~~~L~~~l~~------~  298 (854)
T 1qvr_A          233 QMGSLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAE--------GAVDAGNMLKPALAR------G  298 (854)
T ss_dssp             CC-----------CHHHHHHHHHHHHHTTCSSEEEEECCC---------------------------HHHHHT------T
T ss_pred             ehHHhhccCccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCcc--------chHHHHHHHHHHHhC------C
Confidence            8877632        23456666544   357899999999986421110        011112223333322      4


Q ss_pred             ceEEEEEcCCCC----CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          342 ERIIVFTTNYKE----RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       342 ~~ivI~TTN~~~----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      ++.+|++||.++    .+|++|.|  ||+. |.++.|+.+++..+++.++.
T Consensus       299 ~i~~I~at~~~~~~~~~~d~aL~r--Rf~~-i~l~~p~~~e~~~iL~~~~~  346 (854)
T 1qvr_A          299 ELRLIGATTLDEYREIEKDPALER--RFQP-VYVDEPTVEETISILRGLKE  346 (854)
T ss_dssp             CCCEEEEECHHHHHHHTTCTTTCS--CCCC-EEECCCCHHHHHHHHHHHHH
T ss_pred             CeEEEEecCchHHhhhccCHHHHh--CCce-EEeCCCCHHHHHHHHHhhhh
Confidence            567888888664    47999999  9986 99999999999999987665

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.56  E-value=3.1e-14  Score=141.62  Aligned_cols=130  Identities=12%  Similarity=0.178  Sum_probs=95.3

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc----------CCcEEEEeccccCC----------------------hHHHHHHH
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYDMELASLRS----------------------NSDLRRLL  287 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~l~~~~~~~----------------------~~~l~~ll  287 (455)
                      .+.++|||||||||||++++++++++          ++.++.++|..+.+                      ...+.+.|
T Consensus        44 ~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f  123 (318)
T 3te6_A           44 QNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKENLCGDISLEALNFYI  123 (318)
T ss_dssp             CCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC--CCCCHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCCCCchHHHHHHHHHH
Confidence            47799999999999999999999999          35677888765422                      23456666


Q ss_pred             Hhh----CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCC----Cccc
Q 047029          288 VST----GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERL----DPAL  359 (455)
Q Consensus       288 ~~~----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~L----d~al  359 (455)
                      ...    ..+.|++|||+|.+.               .+..+..|++...    .....++||+++|..+..    ++++
T Consensus       124 ~~~~~~~~~~~ii~lDE~d~l~---------------~q~~L~~l~~~~~----~~~s~~~vI~i~n~~d~~~~~L~~~v  184 (318)
T 3te6_A          124 TNVPKAKKRKTLILIQNPENLL---------------SEKILQYFEKWIS----SKNSKLSIICVGGHNVTIREQINIMP  184 (318)
T ss_dssp             HHSCGGGSCEEEEEEECCSSSC---------------CTHHHHHHHHHHH----CSSCCEEEEEECCSSCCCHHHHHTCH
T ss_pred             HHhhhccCCceEEEEecHHHhh---------------cchHHHHHHhccc----ccCCcEEEEEEecCcccchhhcchhh
Confidence            543    457899999999873               1334444554322    122468899999988653    4555


Q ss_pred             cCCCcee-EEEEeCCCCHHHHHHHHHHhhccc
Q 047029          360 LRPGRMD-MHIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       360 lRpGR~d-~~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      .+  ||. ..|+|+.++.++...|+++.+...
T Consensus       185 ~S--R~~~~~i~F~pYt~~el~~Il~~Rl~~~  214 (318)
T 3te6_A          185 SL--KAHFTEIKLNKVDKNELQQMIITRLKSL  214 (318)
T ss_dssp             HH--HTTEEEEECCCCCHHHHHHHHHHHHHHH
T ss_pred             hc--cCCceEEEeCCCCHHHHHHHHHHHHHhh
Confidence            66  886 589999999999999999888653

>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=99.56  E-value=4.2e-14  Score=141.74  Aligned_cols=158  Identities=13%  Similarity=0.186  Sum_probs=109.0

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-CC------------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-KF------------  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-~~------------  267 (455)
                      -.|.+|++++|.+++++.+.+.+.          ..|. .+. ++|+||||||||++++++|+.+ +.            
T Consensus         8 yrP~~~~~~vg~~~~~~~l~~~~~----------~~~~-~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~   75 (354)
T 1sxj_E            8 YRPKSLNALSHNEELTNFLKSLSD----------QPRD-LPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQF   75 (354)
T ss_dssp             TCCCSGGGCCSCHHHHHHHHTTTT----------CTTC-CCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC--------
T ss_pred             cCCCCHHHhcCCHHHHHHHHHHHh----------hCCC-CCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceee
Confidence            568999999999888776655441          1122 233 9999999999999999999964 21            


Q ss_pred             ----------------cEEEEeccccCChH--HHHHHHHh----------------hCCceEEEEecccchhhhhhhcCC
Q 047029          268 ----------------DIYDMELASLRSNS--DLRRLLVS----------------TGNRSILVIEDIDCSIELENRQCG  313 (455)
Q Consensus       268 ----------------~v~~l~~~~~~~~~--~l~~ll~~----------------~~~~~IL~iDEiD~l~~~~~~~~~  313 (455)
                                      +++.++.+......  .+++.+..                ..++.|++|||++.+-.       
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~-------  148 (354)
T 1sxj_E           76 VTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTK-------  148 (354)
T ss_dssp             ----------CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCH-------
T ss_pred             cccccccceeeeecccceEEecHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCH-------
Confidence                            12333332221111  34444432                22567999999998521       


Q ss_pred             CCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCC
Q 047029          314 GGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHS  393 (455)
Q Consensus       314 ~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~  393 (455)
                               ...+.|+..++...    .+..+|++||.++.+.+++.+  |+ ..++|+.|+.++...+++..+..++..
T Consensus       149 ---------~~~~~L~~~le~~~----~~~~~Il~t~~~~~l~~~l~s--R~-~~~~~~~~~~~~~~~~l~~~~~~~~~~  212 (354)
T 1sxj_E          149 ---------DAQAALRRTMEKYS----KNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPAPSDSEISTILSDVVTNERIQ  212 (354)
T ss_dssp             ---------HHHHHHHHHHHHST----TTEEEEEEESCSCSSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTCE
T ss_pred             ---------HHHHHHHHHHHhhc----CCCEEEEEeCCHHHHHHHHHh--hc-eEEecCCcCHHHHHHHHHHHHHHcCCC
Confidence                     33455666666542    357889999999999999999  88 789999999999999999887655433

>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=99.54  E-value=6.4e-14  Score=140.83  Aligned_cols=163  Identities=16%  Similarity=0.210  Sum_probs=114.9

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc------CCcEEEEe
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL------KFDIYDME  273 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l------~~~v~~l~  273 (455)
                      +.+...++.++|.++..+.+.+.+...+..         ..++.++|+||||||||++++++++.+      +..++.++
T Consensus        13 l~~~~~p~~~~gr~~e~~~l~~~l~~~~~~---------~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~   83 (386)
T 2qby_A           13 LLPDYIPDELPHREDQIRKIASILAPLYRE---------EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYIN   83 (386)
T ss_dssp             GSSSCCCSCCTTCHHHHHHHHHSSGGGGGT---------CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEE
T ss_pred             CCCccCCCCCCChHHHHHHHHHHHHHHHcC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEE
Confidence            344455688999988888877765432221         235689999999999999999999998      88888888


Q ss_pred             ccccCC----------------------hHH-HH---HHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhh
Q 047029          274 LASLRS----------------------NSD-LR---RLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSG  327 (455)
Q Consensus       274 ~~~~~~----------------------~~~-l~---~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~  327 (455)
                      +....+                      ... +.   ..+.....+.||+|||++.+..            ......+..
T Consensus        84 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~------------~~~~~~l~~  151 (386)
T 2qby_A           84 TRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVK------------KYNDDILYK  151 (386)
T ss_dssp             HHHHCSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHH------------SSCSTHHHH
T ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhc------------cCcCHHHHH
Confidence            653211                      122 12   2222333489999999998854            111245666


Q ss_pred             hhhhhhcccccCCCceEEEEEcCCC---CCCCccccCCCcee-EEEEeCCCCHHHHHHHHHHhhc
Q 047029          328 LLNFVDGLWSSCGDERIIVFTTNYK---ERLDPALLRPGRMD-MHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       328 LL~~ldg~~~~~~~~~ivI~TTN~~---~~Ld~allRpGR~d-~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      ++..++..   ...++.+|++||.+   +.+++++.+  ||. ..|+++.++.++..+++..++.
T Consensus       152 l~~~~~~~---~~~~~~~I~~~~~~~~~~~~~~~~~~--r~~~~~i~l~~l~~~~~~~il~~~~~  211 (386)
T 2qby_A          152 LSRINSEV---NKSKISFIGITNDVKFVDLLDPRVKS--SLSEEEIIFPPYNAEELEDILTKRAQ  211 (386)
T ss_dssp             HHHHHHSC---CC--EEEEEEESCGGGGGGCTTHHHH--TTTTEEEEECCCCHHHHHHHHHHHHH
T ss_pred             Hhhchhhc---CCCeEEEEEEECCCChHhhhCHHHhc--cCCCeeEEeCCCCHHHHHHHHHHHHH
Confidence            77776654   12467888899876   568888888  665 4899999999999999998775

>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=99.54  E-value=1.1e-13  Score=138.68  Aligned_cols=155  Identities=21%  Similarity=0.321  Sum_probs=112.1

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC-----CcEEEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK-----FDIYDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~-----~~v~~l~~~  275 (455)
                      ..|.+|++++|++.+++.|...+.    .       |.. + ++|||||||||||++++++|+.+.     ..+..++.+
T Consensus        19 ~rp~~~~~~~g~~~~~~~L~~~i~----~-------g~~-~-~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~   85 (340)
T 1sxj_C           19 YRPETLDEVYGQNEVITTVRKFVD----E-------GKL-P-HLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNAS   85 (340)
T ss_dssp             TCCSSGGGCCSCHHHHHHHHHHHH----T-------TCC-C-CEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTT
T ss_pred             hCCCcHHHhcCcHHHHHHHHHHHh----c-------CCC-c-eEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCc
Confidence            467899999999887776665543    1       222 2 399999999999999999999973     246667766


Q ss_pred             ccCChHHHHHHHHhh--------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEE
Q 047029          276 SLRSNSDLRRLLVST--------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVF  347 (455)
Q Consensus       276 ~~~~~~~l~~ll~~~--------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~  347 (455)
                      ...+...+++.+...        ..+.|++|||+|.+..                ...+.|+..++...    ....+|+
T Consensus        86 ~~~~~~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~~----------------~~~~~L~~~le~~~----~~~~~il  145 (340)
T 1sxj_C           86 DDRGIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTN----------------AAQNALRRVIERYT----KNTRFCV  145 (340)
T ss_dssp             SCCSHHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCH----------------HHHHHHHHHHHHTT----TTEEEEE
T ss_pred             ccccHHHHHHHHHHHHhhcccCCCCceEEEEeCCCCCCH----------------HHHHHHHHHHhcCC----CCeEEEE
Confidence            544444455443221        2368999999998732                23455666666432    4567888


Q ss_pred             EcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccC
Q 047029          348 TTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKS  391 (455)
Q Consensus       348 TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~  391 (455)
                      +||.+..+.+++.+  |+. .+.+..++.++....+...+....
T Consensus       146 ~~n~~~~i~~~i~s--R~~-~~~~~~l~~~~~~~~l~~~~~~~~  186 (340)
T 1sxj_C          146 LANYAHKLTPALLS--QCT-RFRFQPLPQEAIERRIANVLVHEK  186 (340)
T ss_dssp             EESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHTTT
T ss_pred             EecCccccchhHHh--hce-eEeccCCCHHHHHHHHHHHHHHcC
Confidence            89999999999999  885 789999999998888887775433

>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=99.54  E-value=1.2e-13  Score=152.92  Aligned_cols=159  Identities=24%  Similarity=0.283  Sum_probs=111.6

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEE
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYD  271 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~  271 (455)
                      .|..|+.++|.++..+.+++.+.             ...+.++||+||||||||++|+++|+.+          +..++.
T Consensus       181 ~~~~~d~~iGr~~~i~~l~~~l~-------------~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~  247 (758)
T 1r6b_X          181 RVGGIDPLIGREKELERAIQVLC-------------RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYS  247 (758)
T ss_dssp             HTTCSCCCCSCHHHHHHHHHHHT-------------SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEE
T ss_pred             hcCCCCCccCCHHHHHHHHHHHh-------------ccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEE
Confidence            35689999999888887776553             2246789999999999999999999987          667777


Q ss_pred             EeccccCC--------hHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCC
Q 047029          272 MELASLRS--------NSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGD  341 (455)
Q Consensus       272 l~~~~~~~--------~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~  341 (455)
                      +++..+..        ...++.++....  .++||||||+|.+.+...        ..........+|   ..+...  +
T Consensus       248 ~~~~~l~~~~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~--------~~~~~~~~~~~L---~~~l~~--~  314 (758)
T 1r6b_X          248 LDIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGA--------ASGGQVDAANLI---KPLLSS--G  314 (758)
T ss_dssp             CCCC---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCC--------SSSCHHHHHHHH---SSCSSS--C
T ss_pred             EcHHHHhccccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCC--------CCcchHHHHHHH---HHHHhC--C
Confidence            77665421        245667776554  379999999999864110        001111222222   222222  4


Q ss_pred             ceEEEEEcCCC-----CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          342 ERIIVFTTNYK-----ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       342 ~~ivI~TTN~~-----~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      ++.+|++||.+     -.+|++|.|  ||+ .|.++.|+.+++..+++.+...
T Consensus       315 ~~~~I~at~~~~~~~~~~~d~aL~~--Rf~-~i~v~~p~~~e~~~il~~l~~~  364 (758)
T 1r6b_X          315 KIRVIGSTTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLKPK  364 (758)
T ss_dssp             CCEEEEEECHHHHHCCCCCTTSSGG--GEE-EEECCCCCHHHHHHHHHHHHHH
T ss_pred             CeEEEEEeCchHHhhhhhcCHHHHh--Cce-EEEcCCCCHHHHHHHHHHHHHH
Confidence            57788888864     357899999  998 6999999999999999876643

>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=99.54  E-value=7.3e-14  Score=154.49  Aligned_cols=154  Identities=17%  Similarity=0.265  Sum_probs=113.7

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC----CCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh---
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKA----WKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN---  280 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~----~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~---  280 (455)
                      .++|.++.++.+...+...        +.|..    +..++||+||||||||++|+++|+.++.+++.++++.+...   
T Consensus       459 ~v~g~~~~~~~l~~~i~~~--------~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~  530 (758)
T 1r6b_X          459 LVFGQDKAIEALTEAIKMA--------RAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTV  530 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHH--------HTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCC
T ss_pred             hccCHHHHHHHHHHHHHHH--------hcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhH
Confidence            4667777777776655422        22332    22369999999999999999999999999999998876321   


Q ss_pred             ----------------HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-c-cC---
Q 047029          281 ----------------SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-S-SC---  339 (455)
Q Consensus       281 ----------------~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~-~~---  339 (455)
                                      ..+...+.. ..++||||||||.+.+                ..++.|+..||... . ..   
T Consensus       531 ~~l~g~~~g~~g~~~~~~l~~~~~~-~~~~vl~lDEi~~~~~----------------~~~~~Ll~~le~~~~~~~~g~~  593 (758)
T 1r6b_X          531 SRLIGAPPGYVGFDQGGLLTDAVIK-HPHAVLLLDEIEKAHP----------------DVFNILLQVMDNGTLTDNNGRK  593 (758)
T ss_dssp             SSSCCCCSCSHHHHHTTHHHHHHHH-CSSEEEEEETGGGSCH----------------HHHHHHHHHHHHSEEEETTTEE
T ss_pred             hhhcCCCCCCcCccccchHHHHHHh-CCCcEEEEeCccccCH----------------HHHHHHHHHhcCcEEEcCCCCE
Confidence                            123333333 4579999999997632                46677888887321 1 11   


Q ss_pred             --CCceEEEEEcCCCC-------------------------CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          340 --GDERIIVFTTNYKE-------------------------RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       340 --~~~~ivI~TTN~~~-------------------------~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                        ..+.+||+|||...                         .++|+|++  ||+..|.|++++.+++..|+..++.
T Consensus       594 ~~~~~~~iI~tsN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~--R~~~~i~~~~l~~~~~~~i~~~~l~  667 (758)
T 1r6b_X          594 ADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIV  667 (758)
T ss_dssp             EECTTEEEEEEECSSCC-----------------CHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             EecCCeEEEEecCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHh--hCCcceeeCCCCHHHHHHHHHHHHH
Confidence              13578999999753                         57888888  9999999999999999999998886

>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=99.53  E-value=3.3e-14  Score=137.23  Aligned_cols=155  Identities=14%  Similarity=0.164  Sum_probs=101.8

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC---CcEEEEeccccCCh
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---FDIYDMELASLRSN  280 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~---~~v~~l~~~~~~~~  280 (455)
                      .+|++++|.....+.+++.+.....           .+.++||+||||||||++|+++++.+.   .+++.++++.+.. 
T Consensus         3 ~~f~~~ig~~~~~~~~~~~~~~~~~-----------~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~-   70 (265)
T 2bjv_A            3 EYKDNLLGEANSFLEVLEQVSHLAP-----------LDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNE-   70 (265)
T ss_dssp             -------CCCHHHHHHHHHHHHHTT-----------SCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCH-
T ss_pred             cccccceeCCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCCh-
Confidence            4799999999988888887765432           256899999999999999999999985   6899999987632 


Q ss_pred             HHHHH-HHH-----------------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-cc---
Q 047029          281 SDLRR-LLV-----------------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-SS---  338 (455)
Q Consensus       281 ~~l~~-ll~-----------------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~~---  338 (455)
                      ..+.. +|.                 ....+++|||||||.+..                .....|+..++... ..   
T Consensus        71 ~~~~~~l~g~~~~~~~g~~~~~~~~l~~a~~~~l~lDEi~~l~~----------------~~q~~Ll~~l~~~~~~~~g~  134 (265)
T 2bjv_A           71 NLLDSELFGHEAGAFTGAQKRHPGRFERADGGTLFLDELATAPM----------------MVQEKLLRVIEYGELERVGG  134 (265)
T ss_dssp             HHHHHHHHCCC---------CCCCHHHHTTTSEEEEESGGGSCH----------------HHHHHHHHHHHHCEECCCCC
T ss_pred             hHHHHHhcCCcccccccccccccchhhhcCCcEEEEechHhcCH----------------HHHHHHHHHHHhCCeecCCC
Confidence            22222 211                 113467999999998742                23455666665321 10   


Q ss_pred             ---CCCceEEEEEcCCC-------CCCCccccCCCcee-EEEEeCCCCH--HHHHHHHHHhhc
Q 047029          339 ---CGDERIIVFTTNYK-------ERLDPALLRPGRMD-MHIHMSYLTP--GGFKILAFNYLK  388 (455)
Q Consensus       339 ---~~~~~ivI~TTN~~-------~~Ld~allRpGR~d-~~I~~~~p~~--~~~~~L~~~~l~  388 (455)
                         ...++.+|+|||..       ..++++|.+  ||. ..|.+|....  +....++..++.
T Consensus       135 ~~~~~~~~~iI~atn~~~~~~~~~~~~~~~L~~--Rl~~~~i~lp~L~~R~~di~~l~~~~l~  195 (265)
T 2bjv_A          135 SQPLQVNVRLVCATNADLPAMVNEGTFRADLLD--ALAFDVVQLPPLRERESDIMLMAEYFAI  195 (265)
T ss_dssp             --CEECCCEEEEEESSCHHHHHHHTSSCHHHHH--HHCSEEEECCCGGGCHHHHHHHHHHHHH
T ss_pred             cccccCCeEEEEecCcCHHHHHHcCCccHHHHH--hhcCcEEeCCChhhhhHHHHHHHHHHHH
Confidence               11346788999974       357888888  885 5677776654  556667776654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.53  E-value=9.8e-14  Score=153.58  Aligned_cols=146  Identities=18%  Similarity=0.212  Sum_probs=106.1

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEE
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYD  271 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~  271 (455)
                      .|..|+.++|.++..+.+++.+.             ...+.++||+||||||||++|+++|+.+          +..++.
T Consensus       175 ~~~~ld~iiG~~~~i~~l~~~l~-------------~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~  241 (758)
T 3pxi_A          175 KEDSLDPVIGRSKEIQRVIEVLS-------------RRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMT  241 (758)
T ss_dssp             TSSCSCCCCCCHHHHHHHHHHHH-------------CSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEEC
T ss_pred             hhCCCCCccCchHHHHHHHHHHh-------------CCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEE
Confidence            45679999999999888877654             1336689999999999999999999997          788888


Q ss_pred             Eecccc---CChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEE
Q 047029          272 MELASL---RSNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIV  346 (455)
Q Consensus       272 l~~~~~---~~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI  346 (455)
                      +++..-   .....++.++...  ..++|||||  ..                  ....+.|+..++      .+++.+|
T Consensus       242 ~~~g~~~~G~~e~~l~~~~~~~~~~~~~iLfiD--~~------------------~~~~~~L~~~l~------~~~v~~I  295 (758)
T 3pxi_A          242 LDMGTKYRGEFEDRLKKVMDEIRQAGNIILFID--AA------------------IDASNILKPSLA------RGELQCI  295 (758)
T ss_dssp             C----------CTTHHHHHHHHHTCCCCEEEEC--C--------------------------CCCTT------SSSCEEE
T ss_pred             ecccccccchHHHHHHHHHHHHHhcCCEEEEEc--Cc------------------hhHHHHHHHHHh------cCCEEEE
Confidence            877211   1223566666544  468999999  10                  012233444443      1568899


Q ss_pred             EEcCCCC-----CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          347 FTTNYKE-----RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       347 ~TTN~~~-----~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      ++||..+     .+|+++.|  ||. .|.++.|+.+++..|++.++..
T Consensus       296 ~at~~~~~~~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~il~~~~~~  340 (758)
T 3pxi_A          296 GATTLDEYRKYIEKDAALER--RFQ-PIQVDQPSVDESIQILQGLRDR  340 (758)
T ss_dssp             EECCTTTTHHHHTTCSHHHH--SEE-EEECCCCCHHHHHHHHHHTTTT
T ss_pred             eCCChHHHHHHhhccHHHHh--hCc-EEEeCCCCHHHHHHHHHHHHHH
Confidence            9999888     79999999  995 5999999999999999987764

>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=99.52  E-value=4.6e-13  Score=135.18  Aligned_cols=165  Identities=17%  Similarity=0.086  Sum_probs=117.4

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEecc
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMELA  275 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~~  275 (455)
                      +.+...++.++|.++..+.+.+.+...+.+..       +..+.++|+||||||||++++++++.+    +..++.+++.
T Consensus        10 l~~~~~p~~l~gr~~~~~~l~~~l~~~~~~~~-------~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~   82 (389)
T 1fnn_A           10 FSPSYVPKRLPHREQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGF   82 (389)
T ss_dssp             GSTTCCCSCCTTCHHHHHHHHHHHHHHHHSTT-------SSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETT
T ss_pred             cCCccCCCCCCChHHHHHHHHHHHHHHHcCCC-------CCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCc
Confidence            33344558899999999999888876554321       112389999999999999999999999    5778888876


Q ss_pred             ccCChH----------------------H----HHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhh
Q 047029          276 SLRSNS----------------------D----LRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLL  329 (455)
Q Consensus       276 ~~~~~~----------------------~----l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL  329 (455)
                      ...+..                      .    +...+.....+.||+|||+|.+.                ...+..|+
T Consensus        83 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~----------------~~~~~~L~  146 (389)
T 1fnn_A           83 IYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLA----------------PDILSTFI  146 (389)
T ss_dssp             TCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSC----------------HHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccc----------------hHHHHHHH
Confidence            543211                      1    11222233457899999999761                23455666


Q ss_pred             hhhhcccccCCCceEEEEEcCCC---CCCCccccCCCceeE-EEEeCCCCHHHHHHHHHHhhcc
Q 047029          330 NFVDGLWSSCGDERIIVFTTNYK---ERLDPALLRPGRMDM-HIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       330 ~~ldg~~~~~~~~~ivI~TTN~~---~~Ld~allRpGR~d~-~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      ..++........++.+|++||.+   +.+++.+.+  ||.. .|++++++.++...++...+..
T Consensus       147 ~~~~~~~~~~~~~~~iI~~~~~~~~~~~l~~~~~~--r~~~~~i~~~pl~~~~~~~~l~~~~~~  208 (389)
T 1fnn_A          147 RLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRG--IMGKYVIRFSPYTKDQIFDILLDRAKA  208 (389)
T ss_dssp             HHTTCHHHHSSCCEEEEEEESSTHHHHTSCHHHHH--HHTTCEEECCCCBHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCCcCCEEEEEEECCchHHHHhCHHhhh--cCCCceEEeCCCCHHHHHHHHHHHHHh
Confidence            66654422111357888999987   778888888  8775 8999999999999999888764

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.52  E-value=1.2e-13  Score=152.81  Aligned_cols=156  Identities=15%  Similarity=0.215  Sum_probs=113.2

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCC---Cc-eeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCC
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAW---KR-GYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRS  279 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~---~r-g~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~  279 (455)
                      +.++|.+..++.+.+.+.....        |...   +. ++||+||||||||++|+++|+.+   +.+++.++++.+..
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~--------~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~  562 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARA--------GLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYME  562 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTT--------TCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCS
T ss_pred             CcCcChHHHHHHHHHHHHHHHc--------ccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhccc
Confidence            4578888888888777764321        2221   22 69999999999999999999998   68899999988643


Q ss_pred             h-----HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc-------CCCceEEEE
Q 047029          280 N-----SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS-------CGDERIIVF  347 (455)
Q Consensus       280 ~-----~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~-------~~~~~ivI~  347 (455)
                      .     ..+...+.. ..++||||||||.+.                ...++.|+..||...-.       ...+.+||+
T Consensus       563 ~~~~~~~~l~~~~~~-~~~~vl~lDEi~~~~----------------~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~  625 (758)
T 3pxi_A          563 KHSTSGGQLTEKVRR-KPYSVVLLDAIEKAH----------------PDVFNILLQVLEDGRLTDSKGRTVDFRNTILIM  625 (758)
T ss_dssp             SCCCC---CHHHHHH-CSSSEEEEECGGGSC----------------HHHHHHHHHHHHHSBCC-----CCBCTTCEEEE
T ss_pred             ccccccchhhHHHHh-CCCeEEEEeCccccC----------------HHHHHHHHHHhccCeEEcCCCCEeccCCeEEEE
Confidence            2     233333332 457899999999763                24567788888752211       124579999


Q ss_pred             EcCCCCC------------CCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc
Q 047029          348 TTNYKER------------LDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI  389 (455)
Q Consensus       348 TTN~~~~------------Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~  389 (455)
                      |||.+..            +.|+|+.  ||+..|.|++|+.+++..|+..++..
T Consensus       626 ttn~~~~~~~~~~~~~~~~f~p~l~~--Rl~~~i~~~~l~~~~~~~i~~~~l~~  677 (758)
T 3pxi_A          626 TSNVGASEKDKVMGELKRAFRPEFIN--RIDEIIVFHSLEKKHLTEIVSLMSDQ  677 (758)
T ss_dssp             EESSSTTCCHHHHHHHHHHSCHHHHT--TSSEEEECC--CHHHHHHHHHHHHHH
T ss_pred             eCCCChhhHHHHHHHHHhhCCHHHHh--hCCeEEecCCCCHHHHHHHHHHHHHH
Confidence            9996544            7788888  99999999999999999999988754

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.42  E-value=6.7e-14  Score=123.02  Aligned_cols=132  Identities=11%  Similarity=0.064  Sum_probs=86.4

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHH
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLL  287 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll  287 (455)
                      +++|.....+++.+.+..+...           +.++||+||||||||++|+++++..+ +++.++++.+.. .....++
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~-----------~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~~~~~-~~~~~~~   71 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKR-----------TSPVFLTGEAGSPFETVARYFHKNGT-PWVSPARVEYLI-DMPMELL   71 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTC-----------SSCEEEEEETTCCHHHHHGGGCCTTS-CEECCSSTTHHH-HCHHHHH
T ss_pred             CceeCCHHHHHHHHHHHHHhCC-----------CCcEEEECCCCccHHHHHHHHHHhCC-CeEEechhhCCh-HhhhhHH
Confidence            3667777888888887755422           56899999999999999999999988 888888876532 1133344


Q ss_pred             HhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC-CCC----CccccCC
Q 047029          288 VSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK-ERL----DPALLRP  362 (455)
Q Consensus       288 ~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~-~~L----d~allRp  362 (455)
                      . ...+++|||||||.+..                .....|+..++...   ..++.+|+|||.+ +.+    ++.|.. 
T Consensus        72 ~-~a~~~~l~lDei~~l~~----------------~~q~~Ll~~l~~~~---~~~~~iI~~tn~~~~~~~~~~~~~L~~-  130 (143)
T 3co5_A           72 Q-KAEGGVLYVGDIAQYSR----------------NIQTGITFIIGKAE---RCRVRVIASCSYAAGSDGISCEEKLAG-  130 (143)
T ss_dssp             H-HTTTSEEEEEECTTCCH----------------HHHHHHHHHHHHHT---TTTCEEEEEEEECTTTC--CHHHHHHH-
T ss_pred             H-hCCCCeEEEeChHHCCH----------------HHHHHHHHHHHhCC---CCCEEEEEecCCCHHHHHhCccHHHHH-
Confidence            3 34578999999998743                23344666666432   2456788888853 332    233333 


Q ss_pred             Cce-eEEEEeCCC
Q 047029          363 GRM-DMHIHMSYL  374 (455)
Q Consensus       363 GR~-d~~I~~~~p  374 (455)
                       |+ ...|++|+.
T Consensus       131 -rl~~~~i~lPpL  142 (143)
T 3co5_A          131 -LFSESVVRIPPL  142 (143)
T ss_dssp             -HSSSEEEEECCC
T ss_pred             -HhcCcEEeCCCC
Confidence             43 345666653

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.42  E-value=5.2e-13  Score=117.47  Aligned_cols=112  Identities=12%  Similarity=0.101  Sum_probs=80.4

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHHH
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDLR  284 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l~  284 (455)
                      .++|.....+++++.+.....           .+..+||+||||||||++|+++++..   +.+++ ++++.+.......
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~-----------~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~~~~~   69 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSE-----------TDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNAPQLN   69 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTT-----------CCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTSSCHH
T ss_pred             CceeCCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcchhhh
Confidence            467777777777777764422           25689999999999999999999987   77888 9998876555555


Q ss_pred             HHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          285 RLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       285 ~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                      ..+... .+++|||||||.+..                .....|+..|...    ..++.+|+|||.+
T Consensus        70 ~~~~~a-~~g~l~ldei~~l~~----------------~~q~~Ll~~l~~~----~~~~~~I~~t~~~  116 (145)
T 3n70_A           70 DFIALA-QGGTLVLSHPEHLTR----------------EQQYHLVQLQSQE----HRPFRLIGIGDTS  116 (145)
T ss_dssp             HHHHHH-TTSCEEEECGGGSCH----------------HHHHHHHHHHHSS----SCSSCEEEEESSC
T ss_pred             cHHHHc-CCcEEEEcChHHCCH----------------HHHHHHHHHHhhc----CCCEEEEEECCcC
Confidence            555544 467999999998743                2345567766433    2345688888864

>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=99.41  E-value=6.6e-12  Score=125.67  Aligned_cols=125  Identities=18%  Similarity=0.171  Sum_probs=96.0

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcC------------------------CcEEEEecc---ccCChHHHHHHHHhhC-
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLK------------------------FDIYDMELA---SLRSNSDLRRLLVSTG-  291 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~------------------------~~v~~l~~~---~~~~~~~l~~ll~~~~-  291 (455)
                      .+.+||||||||||||++|+++|+.+.                        .+++.++..   .-.+...++.++.... 
T Consensus        23 ~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir~l~~~~~~  102 (334)
T 1a5t_A           23 GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNE  102 (334)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTS
T ss_pred             cceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHHHHHHHHhh
Confidence            356899999999999999999999884                        245556543   2223456677665442 


Q ss_pred             -----CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCcee
Q 047029          292 -----NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMD  366 (455)
Q Consensus       292 -----~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d  366 (455)
                           .+.|++|||+|.+..                ...+.|+..++.-    +.+.++|++||.++.+.|++++  |+ 
T Consensus       103 ~~~~~~~kvviIdead~l~~----------------~a~naLLk~lEep----~~~~~~Il~t~~~~~l~~ti~S--Rc-  159 (334)
T 1a5t_A          103 HARLGGAKVVWVTDAALLTD----------------AAANALLKTLEEP----PAETWFFLATREPERLLATLRS--RC-  159 (334)
T ss_dssp             CCTTSSCEEEEESCGGGBCH----------------HHHHHHHHHHTSC----CTTEEEEEEESCGGGSCHHHHT--TS-
T ss_pred             ccccCCcEEEEECchhhcCH----------------HHHHHHHHHhcCC----CCCeEEEEEeCChHhCcHHHhh--cc-
Confidence                 468999999998732                3456778887652    3568889999999999999999  87 


Q ss_pred             EEEEeCCCCHHHHHHHHHHhh
Q 047029          367 MHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       367 ~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      ..++|+.|+.++....+....
T Consensus       160 ~~~~~~~~~~~~~~~~L~~~~  180 (334)
T 1a5t_A          160 RLHYLAPPPEQYAVTWLSREV  180 (334)
T ss_dssp             EEEECCCCCHHHHHHHHHHHC
T ss_pred             eeeeCCCCCHHHHHHHHHHhc
Confidence            479999999999888887765

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.38  E-value=1.7e-12  Score=136.77  Aligned_cols=146  Identities=14%  Similarity=0.122  Sum_probs=94.8

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--cEEEEeccccCChHHH--
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--DIYDMELASLRSNSDL--  283 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--~v~~l~~~~~~~~~~l--  283 (455)
                      .++|.+++++.+...+..               +.++||+||||||||++|+++|+.++.  ++..+.+.. .+.+++  
T Consensus        23 ~ivGq~~~i~~l~~al~~---------------~~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~-~t~~dL~G   86 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALS---------------GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRF-STPEEVFG   86 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHH---------------TCEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTT-CCHHHHHC
T ss_pred             hhHHHHHHHHHHHHHHhc---------------CCeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhc-CCHHHhcC
Confidence            467777777766554431               458999999999999999999999853  334443321 111111  


Q ss_pred             ---------HHHHHhhC-----CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhc-------ccccCCCc
Q 047029          284 ---------RRLLVSTG-----NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDG-------LWSSCGDE  342 (455)
Q Consensus       284 ---------~~ll~~~~-----~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg-------~~~~~~~~  342 (455)
                               ...+....     .++|||||||+.+.                ..+.+.|+..|+.       ..... +.
T Consensus        87 ~~~~~~~~~~g~~~~~~~g~l~~~~IL~IDEI~r~~----------------~~~q~~LL~~lee~~v~i~G~~~~~-~~  149 (500)
T 3nbx_X           87 PLSIQALKDEGRYERLTSGYLPEAEIVFLDEIWKAG----------------PAILNTLLTAINERQFRNGAHVEKI-PM  149 (500)
T ss_dssp             CBC----------CBCCTTSGGGCSEEEEESGGGCC----------------HHHHHHHHHHHHSSEEECSSSEEEC-CC
T ss_pred             cccHHHHhhchhHHhhhccCCCcceeeeHHhHhhhc----------------HHHHHHHHHHHHHHhccCCCCcCCc-ch
Confidence                     11121111     35699999998753                2456777777752       21111 23


Q ss_pred             eEEEEEcCCCCC---CCccccCCCceeEEEEeCCCCH-HHHHHHHHHhhc
Q 047029          343 RIIVFTTNYKER---LDPALLRPGRMDMHIHMSYLTP-GGFKILAFNYLK  388 (455)
Q Consensus       343 ~ivI~TTN~~~~---Ld~allRpGR~d~~I~~~~p~~-~~~~~L~~~~l~  388 (455)
                      +++|+|||....   +.+++++  ||.++|++++|+. +++..|++....
T Consensus       150 ~~iI~ATN~lpe~~~~~~aLld--RF~~~i~v~~p~~~ee~~~IL~~~~~  197 (500)
T 3nbx_X          150 RLLVAASNELPEADSSLEALYD--RMLIRLWLDKVQDKANFRSMLTSQQD  197 (500)
T ss_dssp             CEEEEEESSCCCTTCTTHHHHT--TCCEEEECCSCCCHHHHHHHHTCCCC
T ss_pred             hhhhhccccCCCccccHHHHHH--HHHHHHHHHHhhhhhhHHHHHhcccc
Confidence            467888885322   4459999  9999999999997 678888877653

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.37  E-value=1.5e-12  Score=128.90  Aligned_cols=151  Identities=19%  Similarity=0.223  Sum_probs=100.7

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHHH
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDLR  284 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l~  284 (455)
                      +++|.....+++.+.+....           ..+.++||+||||||||++|+++++..   +.+++.++|+.+.. ..+.
T Consensus         3 ~iig~s~~~~~~~~~~~~~a-----------~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~-~l~~   70 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVA-----------PSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNE-SLLE   70 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHC-----------STTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCH-HHHH
T ss_pred             CcEECCHHHHHHHHHHHHHh-----------CCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCCh-HHHH
Confidence            57787777788877776432           225689999999999999999999976   57899999987632 1122


Q ss_pred             H-HHH-----------------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-c------cC
Q 047029          285 R-LLV-----------------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-S------SC  339 (455)
Q Consensus       285 ~-ll~-----------------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~------~~  339 (455)
                      . +|.                 ....+++|||||||.+..                .....|+..++... .      ..
T Consensus        71 ~~lfg~~~g~~tg~~~~~~g~~~~a~~g~L~LDEi~~l~~----------------~~q~~Ll~~l~~~~~~~~g~~~~~  134 (304)
T 1ojl_A           71 SELFGHEKGAFTGADKRREGRFVEADGGTLFLDEIGDISP----------------LMQVRLLRAIQEREVQRVGSNQTI  134 (304)
T ss_dssp             HHHTCCCSSCCC---CCCCCHHHHHTTSEEEEESCTTCCH----------------HHHHHHHHHHHSSBCCBTTBCCCC
T ss_pred             HHhcCccccccCchhhhhcCHHHhcCCCEEEEeccccCCH----------------HHHHHHHHHHhcCEeeecCCcccc
Confidence            1 111                 112357999999998743                23455666666432 1      11


Q ss_pred             CCceEEEEEcCCC-------CCCCccccCCCce-eEEEEeCCCC--HHHHHHHHHHhhc
Q 047029          340 GDERIIVFTTNYK-------ERLDPALLRPGRM-DMHIHMSYLT--PGGFKILAFNYLK  388 (455)
Q Consensus       340 ~~~~ivI~TTN~~-------~~Ld~allRpGR~-d~~I~~~~p~--~~~~~~L~~~~l~  388 (455)
                      ..++.||+|||..       ..++++|..  || ...|++|+..  .++...|+..++.
T Consensus       135 ~~~~riI~atn~~l~~~v~~g~fr~~L~~--Rl~~~~i~lPpL~eR~edi~~l~~~~l~  191 (304)
T 1ojl_A          135 SVDVRLIAATHRDLAEEVSAGRFRQDLYY--RLNVVAIEMPSLRQRREDIPLLADHFLR  191 (304)
T ss_dssp             BCCCEEEEEESSCHHHHHHHTSSCHHHHH--HHSSEEEECCCSGGGGGGHHHHHHHHHH
T ss_pred             cCCeEEEEecCccHHHHHHhCCcHHHHHh--hcCeeEEeccCHHHhHhhHHHHHHHHHH
Confidence            2347889999975       345666776  77 3557777766  4556667777664

>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=99.37  E-value=1.8e-12  Score=145.27  Aligned_cols=155  Identities=19%  Similarity=0.288  Sum_probs=111.9

Q ss_pred             cccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC----CCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCC
Q 047029          207 DTLAMDPVLKQALIDDLDRFVKRREFYSRVGKA----WKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRS  279 (455)
Q Consensus       207 d~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~----~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~  279 (455)
                      +.++|.+..++.+...+....        .|..    +..++||+||||||||++|+++|+.+   +.+++.++++.+..
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~--------~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~  629 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRAR--------AGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYME  629 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHG--------GGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCS
T ss_pred             cccCCcHHHHHHHHHHHHHHh--------cccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccc
Confidence            467888888887777665322        1221    12479999999999999999999999   78999999987633


Q ss_pred             h-------------------HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccc--c
Q 047029          280 N-------------------SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWS--S  338 (455)
Q Consensus       280 ~-------------------~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~--~  338 (455)
                      .                   ..+...+.. ..++||||||||.+.                ...++.|+..||...-  .
T Consensus       630 ~~~~s~l~g~~~~~~G~~~~g~l~~~~~~-~~~~vl~lDEi~~l~----------------~~~~~~Ll~~l~~~~~~~~  692 (854)
T 1qvr_A          630 KHAVSRLIGAPPGYVGYEEGGQLTEAVRR-RPYSVILFDEIEKAH----------------PDVFNILLQILDDGRLTDS  692 (854)
T ss_dssp             SGGGGGC--------------CHHHHHHH-CSSEEEEESSGGGSC----------------HHHHHHHHHHHTTTEECCS
T ss_pred             hhHHHHHcCCCCCCcCccccchHHHHHHh-CCCeEEEEecccccC----------------HHHHHHHHHHhccCceECC
Confidence            2                   122222222 346899999999763                2466778888874321  1


Q ss_pred             C-----CCceEEEEEcCC--------------------------CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          339 C-----GDERIIVFTTNY--------------------------KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       339 ~-----~~~~ivI~TTN~--------------------------~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      .     -.+.+||+|||.                          ...+.|+|+.  ||+..+.+.+|+.++...|+..++
T Consensus       693 ~g~~vd~~~~iiI~tsn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~--Rl~~~i~~~pl~~edi~~i~~~~l  770 (854)
T 1qvr_A          693 HGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQL  770 (854)
T ss_dssp             SSCCEECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCCCCHHHHHHHHHHHH
T ss_pred             CCCEeccCCeEEEEecCcChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHH--hcCeEEeCCCCCHHHHHHHHHHHH
Confidence            1     135789999997                          2346677777  999999999999999999999887


Q ss_pred             c
Q 047029          388 K  388 (455)
Q Consensus       388 ~  388 (455)
                      .
T Consensus       771 ~  771 (854)
T 1qvr_A          771 S  771 (854)
T ss_dssp             H
T ss_pred             H
Confidence            6

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.34  E-value=1.4e-13  Score=148.28  Aligned_cols=128  Identities=21%  Similarity=0.250  Sum_probs=88.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEec----cccCC---hHHH------H-HHHHhhCCceEEEEecccchhhhh
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL----ASLRS---NSDL------R-RLLVSTGNRSILVIEDIDCSIELE  308 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~----~~~~~---~~~l------~-~ll~~~~~~~IL~iDEiD~l~~~~  308 (455)
                      ++||+||||||||++|+++|+.++..++....    ..+..   ....      . ..+ ....++|+||||||.+..  
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~G~l-~~A~~gil~IDEid~l~~--  405 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGAL-VLADGGIAVIDEIDKMRD--  405 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEEECSSGGGTSSCSEEECHH-HHHSSSEECCTTTTCCCS--
T ss_pred             ceEEECCCchHHHHHHHHHHHhCCCceecCCCccccccccceeeeccccccccccCCee-EecCCCcEEeehhhhCCH--
Confidence            79999999999999999999999766654321    11100   0000      0 001 112468999999998632  


Q ss_pred             hhcCCCCCCCCcchhhHhhhhhhhhcc---------cccCCCceEEEEEcCCCC-------------CCCccccCCCcee
Q 047029          309 NRQCGGGYDENNSQVTLSGLLNFVDGL---------WSSCGDERIIVFTTNYKE-------------RLDPALLRPGRMD  366 (455)
Q Consensus       309 ~~~~~~~~~~~~~~~~ls~LL~~ldg~---------~~~~~~~~ivI~TTN~~~-------------~Ld~allRpGR~d  366 (455)
                                    ...+.|+..|+..         ....+.+..||+|||++.             .|+++|++  |||
T Consensus       406 --------------~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~~~~~~~~~ni~l~~aLl~--RFD  469 (595)
T 3f9v_A          406 --------------EDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRYISERPVSDNINLPPTILS--RFD  469 (595)
T ss_dssp             --------------HHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCSCTTSCSCTTTCSCSSSGG--GCS
T ss_pred             --------------hHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCccCcccCchhccCCCHHHHh--hCe
Confidence                          3456677777632         222234578999999886             89999999  998


Q ss_pred             E-EEEeCCCCHHHHHHHHHHhhccc
Q 047029          367 M-HIHMSYLTPGGFKILAFNYLKIK  390 (455)
Q Consensus       367 ~-~I~~~~p~~~~~~~L~~~~l~~~  390 (455)
                      . .+..++|+.+ ...|+++.+...
T Consensus       470 l~~~~~~~~~~e-~~~i~~~il~~~  493 (595)
T 3f9v_A          470 LIFILKDQPGEQ-DRELANYILDVH  493 (595)
T ss_dssp             CCEEECCTTHHH-HHHHHHHHHTTT
T ss_pred             EEEEeCCCCCHH-HHHHHHHHHHHh
Confidence            4 5667788888 888888887653

>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=99.34  E-value=1.5e-12  Score=118.15  Aligned_cols=128  Identities=19%  Similarity=0.256  Sum_probs=80.7

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEeccccC
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMELASLR  278 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~~~~~  278 (455)
                      +.+|++++......+.+.+.+..++..      +....+++++|+||||||||+|++++++.+    |..++.++..++.
T Consensus         6 ~~~f~~~~~~~~~~~~~~~~~~~~~~~------~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~~   79 (180)
T 3ec2_A            6 NANLDTYHPKNVSQNRALLTIRVFVHN------FNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLI   79 (180)
T ss_dssp             TCCSSSCCCCSHHHHHHHHHHHHHHHS------CCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHHH
T ss_pred             hCccccccCCCHHHHHHHHHHHHHHHh------ccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHHH
Confidence            568999988655556666666655543      334446799999999999999999999988    6666666655431


Q ss_pred             Ch-------HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCC
Q 047029          279 SN-------SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY  351 (455)
Q Consensus       279 ~~-------~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~  351 (455)
                      ..       ......+....++.+|+|||++....           +.....   .+.+.++....   .+..+|+|||.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~llilDE~~~~~~-----------~~~~~~---~l~~ll~~~~~---~~~~ii~tsn~  142 (180)
T 3ec2_A           80 FRLKHLMDEGKDTKFLKTVLNSPVLVLDDLGSERL-----------SDWQRE---LISYIITYRYN---NLKSTIITTNY  142 (180)
T ss_dssp             HHHHHHHHHTCCSHHHHHHHTCSEEEEETCSSSCC-----------CHHHHH---HHHHHHHHHHH---TTCEEEEECCC
T ss_pred             HHHHHHhcCchHHHHHHHhcCCCEEEEeCCCCCcC-----------CHHHHH---HHHHHHHHHHH---cCCCEEEEcCC
Confidence            10       00112334445789999999985311           112222   33344443322   24678889987


Q ss_pred             CC
Q 047029          352 KE  353 (455)
Q Consensus       352 ~~  353 (455)
                      +.
T Consensus       143 ~~  144 (180)
T 3ec2_A          143 SL  144 (180)
T ss_dssp             CS
T ss_pred             Ch
Confidence            53

>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=99.33  E-value=9.9e-12  Score=151.32  Aligned_cols=135  Identities=21%  Similarity=0.348  Sum_probs=98.2

Q ss_pred             CceeEEECCCCCChHHHH-HHHHHHcCCcEEEEeccccCChHHHHHHHHhh-----------------CCceEEEEeccc
Q 047029          241 KRGYLLYGPPGTGKSSLI-AAMANYLKFDIYDMELASLRSNSDLRRLLVST-----------------GNRSILVIEDID  302 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla-~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~-----------------~~~~IL~iDEiD  302 (455)
                      ++++||+||||||||++| +++++..++.++.++++...+...+++.+...                 .+++||||||||
T Consensus      1267 ~~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~VlFiDEin 1346 (2695)
T 4akg_A         1267 KRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCDEIN 1346 (2695)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEBSSSSCEEEEEETTT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccCCCCCceEEEEecccc
Confidence            579999999999999999 55555558888999999888777777776532                 124799999999


Q ss_pred             chhhhhhhcCCCCCCCCcchhhHhhhhhhhh--cccccCC------CceEEEEEcCCCC-----CCCccccCCCceeEEE
Q 047029          303 CSIELENRQCGGGYDENNSQVTLSGLLNFVD--GLWSSCG------DERIIVFTTNYKE-----RLDPALLRPGRMDMHI  369 (455)
Q Consensus       303 ~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ld--g~~~~~~------~~~ivI~TTN~~~-----~Ld~allRpGR~d~~I  369 (455)
                      ....          +....+..+.-|...+|  |++....      .++.+|+|||++.     .|+|+++|  || ..|
T Consensus      1347 mp~~----------d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllR--rf-~vi 1413 (2695)
T 4akg_A         1347 LPKL----------DKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTR--HA-AIL 1413 (2695)
T ss_dssp             CSCC----------CSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHT--TE-EEE
T ss_pred             cccc----------cccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhh--ee-eEE
Confidence            6321          00011222333333333  4443221      2478999999995     79999999  99 679


Q ss_pred             EeCCCCHHHHHHHHHHhhc
Q 047029          370 HMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       370 ~~~~p~~~~~~~L~~~~l~  388 (455)
                      .++.|+.+++..|+..++.
T Consensus      1414 ~i~~P~~~~l~~I~~~il~ 1432 (2695)
T 4akg_A         1414 YLGYPSGKSLSQIYEIYYK 1432 (2695)
T ss_dssp             ECCCCTTTHHHHHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHHHHH
Confidence            9999999999999988875

>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=99.32  E-value=8.5e-12  Score=123.55  Aligned_cols=123  Identities=15%  Similarity=0.199  Sum_probs=96.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc------CCcEEEEeccc-cCChHHHHHHHHhhC------CceEEEEecccchhhh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL------KFDIYDMELAS-LRSNSDLRRLLVSTG------NRSILVIEDIDCSIEL  307 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l------~~~v~~l~~~~-~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~  307 (455)
                      ...||||||||||||++++++|+.+      ..+++.++.+. -.+-..+++++....      ...|++|||+|.+-. 
T Consensus        18 ~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~~p~~~~~kvviIdead~lt~-   96 (305)
T 2gno_A           18 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQ-   96 (305)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBCH-
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhhccccCCceEEEeccHHHhCH-
Confidence            4589999999999999999999864      45788887653 334456777765442      357999999998732 


Q ss_pred             hhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          308 ENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       308 ~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                                     ...+.||..|+.-    ++..++|++||.+.+|.|++++  |   .++|+.|+.++....+...+
T Consensus        97 ---------------~a~naLLk~LEep----~~~t~fIl~t~~~~kl~~tI~S--R---~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A           97 ---------------QAANAFLKALEEP----PEYAVIVLNTRRWHYLLPTIKS--R---VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             ---------------HHHHHTHHHHHSC----CTTEEEEEEESCGGGSCHHHHT--T---SEEEECCCCHHHHHHHHHHH
T ss_pred             ---------------HHHHHHHHHHhCC----CCCeEEEEEECChHhChHHHHc--e---eEeCCCCCHHHHHHHHHHHh
Confidence                           3456788888753    3567888888999999999999  7   79999999999888887776


Q ss_pred             c
Q 047029          388 K  388 (455)
Q Consensus       388 ~  388 (455)
                      +
T Consensus       153 ~  153 (305)
T 2gno_A          153 G  153 (305)
T ss_dssp             T
T ss_pred             C
Confidence            3

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=99.22  E-value=2.8e-11  Score=111.58  Aligned_cols=97  Identities=21%  Similarity=0.279  Sum_probs=65.3

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC-CCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKA-WKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL  277 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~-~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~  277 (455)
                      .+.+|+++.+.....+.+++.+..++...      +.. .+++++|+||||||||++++++++.+   +..++.+++..+
T Consensus        20 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~   93 (202)
T 2w58_A           20 LRASLSDVDLNDDGRIKAIRFAERFVAEY------EPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPEL   93 (202)
T ss_dssp             GCCCTTSSCCSSHHHHHHHHHHHHHHHHC------CSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHHH
T ss_pred             HcCCHhhccCCChhHHHHHHHHHHHHHHh------hhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHHH
Confidence            35789999987655555666666666542      111 13799999999999999999999988   677877776543


Q ss_pred             CC-------hHHHHHHHHhhCCceEEEEecccch
Q 047029          278 RS-------NSDLRRLLVSTGNRSILVIEDIDCS  304 (455)
Q Consensus       278 ~~-------~~~l~~ll~~~~~~~IL~iDEiD~l  304 (455)
                      ..       ...+..++.......+|+|||++..
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~lilDei~~~  127 (202)
T 2w58_A           94 FRELKHSLQDQTMNEKLDYIKKVPVLMLDDLGAE  127 (202)
T ss_dssp             HHHHHHC---CCCHHHHHHHHHSSEEEEEEECCC
T ss_pred             HHHHHHHhccchHHHHHHHhcCCCEEEEcCCCCC
Confidence            10       1111222333334579999999864

>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=99.20  E-value=1.2e-10  Score=118.32  Aligned_cols=166  Identities=11%  Similarity=0.096  Sum_probs=107.1

Q ss_pred             CCCCcccccCHHHHHHHHHHH-HHHHHhHHHHhhhcCCCCceeEE--ECCCCCChHHHHHHHHHHc---------CCcEE
Q 047029          203 PSTFDTLAMDPVLKQALIDDL-DRFVKRREFYSRVGKAWKRGYLL--YGPPGTGKSSLIAAMANYL---------KFDIY  270 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l-~~~l~~~~~~~~~g~~~~rg~LL--~GPpGTGKTsla~alA~~l---------~~~v~  270 (455)
                      ....+.++|-++..++|.+.+ .......       ...++.++|  +||||||||++++++++.+         +..++
T Consensus        18 ~~~p~~l~gR~~el~~l~~~l~~~~~~~~-------~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~   90 (412)
T 1w5s_A           18 NYIPPELRVRRGEAEALARIYLNRLLSGA-------GLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQA   90 (412)
T ss_dssp             TCCCSSCSSSCHHHHHHHHHHHHHHHTSS-------CBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             ccCCCCCCChHHHHHHHHHHHhHHHhcCC-------CCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEE
Confidence            334577899888888887776 5433220       012568999  9999999999999999887         45677


Q ss_pred             EEeccccCCh----------------------HH----HHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhh
Q 047029          271 DMELASLRSN----------------------SD----LRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVT  324 (455)
Q Consensus       271 ~l~~~~~~~~----------------------~~----l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~  324 (455)
                      .+++....+.                      ..    +...+.....+.||+|||++.+...          .......
T Consensus        91 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~----------~~~~~~~  160 (412)
T 1w5s_A           91 YVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSS----------PRIAAED  160 (412)
T ss_dssp             EEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSC----------TTSCHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhc----------cCcchHH
Confidence            7776432111                      11    2222233356889999999987420          0012344


Q ss_pred             HhhhhhhhhcccccCC--CceEEEEEcCCCC---CCC---ccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          325 LSGLLNFVDGLWSSCG--DERIIVFTTNYKE---RLD---PALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       325 ls~LL~~ldg~~~~~~--~~~ivI~TTN~~~---~Ld---~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      +..++..++.... .+  .++.+|++||.++   .++   +.+.+  |+...++++.++.++..+++...+.
T Consensus       161 l~~l~~~~~~~~~-~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~--~~~~~i~l~~l~~~e~~~ll~~~~~  229 (412)
T 1w5s_A          161 LYTLLRVHEEIPS-RDGVNRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPAYKSRELYTILEQRAE  229 (412)
T ss_dssp             HHHHHTHHHHSCC-TTSCCBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccc-CCCCceEEEEEEeccccHHHHHhhhcchhhh--hcCCeeeeCCCCHHHHHHHHHHHHH
Confidence            5555555554321 02  4577888888654   344   66666  5555699999999999999987765

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=99.10  E-value=7.3e-11  Score=116.93  Aligned_cols=96  Identities=25%  Similarity=0.395  Sum_probs=62.7

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC----CcEEEEeccccC
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK----FDIYDMELASLR  278 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~----~~v~~l~~~~~~  278 (455)
                      +.+|+++.+....++.+.+.+..|+...      +..++++++||||||||||+|+.++|+.+.    ..+..+.+..+.
T Consensus       120 ~~tfd~f~~~~~~~~~~~~~~~~~i~~~------~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~~l~  193 (308)
T 2qgz_A          120 HIHLSDIDVNNASRMEAFSAILDFVEQY------PSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFA  193 (308)
T ss_dssp             SCCGGGSCCCSHHHHHHHHHHHHHHHHC------SCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHHHHH
T ss_pred             hCCHhhCcCCChHHHHHHHHHHHHHHhc------cccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHHHHH
Confidence            4799999986544455666666666532      111367999999999999999999999764    777777665321


Q ss_pred             -------ChHHHHHHHHhhCCceEEEEecccch
Q 047029          279 -------SNSDLRRLLVSTGNRSILVIEDIDCS  304 (455)
Q Consensus       279 -------~~~~l~~ll~~~~~~~IL~iDEiD~l  304 (455)
                             ....+...+....+..+|+|||++..
T Consensus       194 ~~l~~~~~~~~~~~~~~~~~~~~lLiiDdig~~  226 (308)
T 2qgz_A          194 IDVKNAISNGSVKEEIDAVKNVPVLILDDIGAE  226 (308)
T ss_dssp             HHHHCCCC----CCTTHHHHTSSEEEEETCCC-
T ss_pred             HHHHHHhccchHHHHHHHhcCCCEEEEcCCCCC
Confidence                   11111122223335679999999754

>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=99.09  E-value=9.6e-11  Score=119.17  Aligned_cols=121  Identities=19%  Similarity=0.216  Sum_probs=86.7

Q ss_pred             hcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCC
Q 047029          236 VGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGG  315 (455)
Q Consensus       236 ~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~  315 (455)
                      .++++++.++|+||||+||||+++++++.++..++.++...    ......+.......++++||++.......+. .  
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~~~----~~~~~~lg~~~q~~~~l~dd~~~~~~~~r~l-~--  236 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPL----DRLNFELGVAIDQFLVVFEDVKGTGGESRDL-P--  236 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCT----TTHHHHHGGGTTCSCEEETTCCCSTTTTTTC-C--
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEeccc----hhHHHHHHHhcchhHHHHHHHHHHHHHHhhc-c--
Confidence            47888889999999999999999999999987765533221    1222234445567888999999875421110 0  


Q ss_pred             CCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCC
Q 047029          316 YDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSY  373 (455)
Q Consensus       316 ~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~  373 (455)
                        ..........+.+.+||.       +.|+++||+++.+ ++++||||++..+...+
T Consensus       237 --~~~~~~~~~~l~~~ldG~-------v~v~~~tn~~~~l-~alf~pg~ld~~~~~l~  284 (377)
T 1svm_A          237 --SGQGINNLDNLRDYLDGS-------VKVNLEKKHLNKR-TQIFPPGIVTMNEYSVP  284 (377)
T ss_dssp             --CCSHHHHHHTTHHHHHCS-------SCEEECCSSSCCE-EECCCCEEEEECSCCCC
T ss_pred             --ccCcchHHHHHHHHhcCC-------CeEeeccCchhhH-HHhhcCcccChhHHhhc
Confidence              011112456778888874       4578899999999 89999999999888866

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=99.08  E-value=2.6e-10  Score=105.92  Aligned_cols=115  Identities=18%  Similarity=0.171  Sum_probs=70.2

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCC
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGY  316 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~  316 (455)
                      |+|.++++|+|||||||||++|.++|+.++..++.+.-+  .+.    ..+.......|++|||+|.-.           
T Consensus        54 ~iPkkn~ili~GPPGtGKTt~a~ala~~l~g~i~~fans--~s~----f~l~~l~~~kIiiLDEad~~~-----------  116 (212)
T 1tue_A           54 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVISFVNS--TSH----FWLEPLTDTKVAMLDDATTTC-----------  116 (212)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECCCCCS--SSC----GGGGGGTTCSSEEEEEECHHH-----------
T ss_pred             cCCcccEEEEECCCCCCHHHHHHHHHHHhCCCeeeEEec--cch----hhhcccCCCCEEEEECCCchh-----------
Confidence            466677899999999999999999999997655432111  111    012233345699999998431           


Q ss_pred             CCCcchhhHhhhhhhhhcccc---cCC------CceEEEEEcCCC---CCCCccccCCCceeEEEEeCCCC
Q 047029          317 DENNSQVTLSGLLNFVDGLWS---SCG------DERIIVFTTNYK---ERLDPALLRPGRMDMHIHMSYLT  375 (455)
Q Consensus       317 ~~~~~~~~ls~LL~~ldg~~~---~~~------~~~ivI~TTN~~---~~Ld~allRpGR~d~~I~~~~p~  375 (455)
                          .......+-+.+||...   ...      ....+|+|||..   +..-+.|..  |+ ..+.++.|-
T Consensus       117 ----~~~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN~~~~~~~~~~~L~S--Ri-~~f~F~~~~  180 (212)
T 1tue_A          117 ----WTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLES--RI-TVFEFPNAF  180 (212)
T ss_dssp             ----HHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHT--SC-EEEECCSCC
T ss_pred             ----HHHHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecCCCcccccchhhhhh--hE-EEEEcCCCC
Confidence                11222356677777521   000      124688899963   222345667  87 467777443

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.01  E-value=6.8e-10  Score=130.35  Aligned_cols=146  Identities=14%  Similarity=0.129  Sum_probs=93.6

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHh----------HHHHhh------hcCC----------CCce--eEEECCCCCChH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKR----------REFYSR------VGKA----------WKRG--YLLYGPPGTGKS  255 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~----------~~~~~~------~g~~----------~~rg--~LL~GPpGTGKT  255 (455)
                      .+|+++.+..+.|+++++.+..++..          ++.|+.      .|+.          +|+|  +|+|||||||||
T Consensus      1017 ~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~g~GKT 1096 (1706)
T 3cmw_A         1017 SSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKT 1096 (1706)
T ss_dssp             -------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHH
T ss_pred             ceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCCCCChH
Confidence            57999999999999999999988854          556666      3333          4455  999999999999


Q ss_pred             HHHHHHHHHc---CCcEEEEecccc------------------C----ChHHHHHHHH--hhCCceEEEEecccchhhhh
Q 047029          256 SLIAAMANYL---KFDIYDMELASL------------------R----SNSDLRRLLV--STGNRSILVIEDIDCSIELE  308 (455)
Q Consensus       256 sla~alA~~l---~~~v~~l~~~~~------------------~----~~~~l~~ll~--~~~~~~IL~iDEiD~l~~~~  308 (455)
                      +||.++|.+.   +-+...++....                  .    ++..++.++.  ....++++++|++|++.+.+
T Consensus      1097 ~la~~~~~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~~~~~i~~d~~~al~~~~ 1176 (1706)
T 3cmw_A         1097 TLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKA 1176 (1706)
T ss_dssp             HHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGGCCCHH
T ss_pred             HHHHHHHHHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhcCCeEEEeCchHhcCccc
Confidence            9999999876   334444443321                  1    2345544443  24579999999999998754


Q ss_pred             hhcCCCC-CCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          309 NRQCGGG-YDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       309 ~~~~~~~-~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                      ..+...+ .+.....+.++++|..||++...  .+++|| +||+.
T Consensus      1177 ~~~g~~~~~~~~~~~r~~~q~l~~~~~~~~~--~~v~v~-~~n~~ 1218 (1706)
T 3cmw_A         1177 EIEGEIGDSHMGLAARMMSQAMRKLAGNLKQ--SNTLLI-FINQI 1218 (1706)
T ss_dssp             HHHSCTTCCCTTHHHHHHHHHHHHHHHHHHH--TTCEEE-EEECE
T ss_pred             ccccccccccccHHHHHHHHHHHHHHhhhcc--CCeEEE-Eeccc
Confidence            3221111 11233445689999999997664  335555 77754

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=98.98  E-value=4.8e-10  Score=120.96  Aligned_cols=52  Identities=33%  Similarity=0.349  Sum_probs=41.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      -.|.+|++++|...+++.+...+.    .           ...++|+||||||||++++++|+.+..
T Consensus        35 ~rp~~l~~i~G~~~~l~~l~~~i~----~-----------g~~vll~Gp~GtGKTtlar~ia~~l~~   86 (604)
T 3k1j_A           35 VPEKLIDQVIGQEHAVEVIKTAAN----Q-----------KRHVLLIGEPGTGKSMLGQAMAELLPT   86 (604)
T ss_dssp             CCSSHHHHCCSCHHHHHHHHHHHH----T-----------TCCEEEECCTTSSHHHHHHHHHHTSCC
T ss_pred             ccccccceEECchhhHhhcccccc----C-----------CCEEEEEeCCCCCHHHHHHHHhccCCc
Confidence            346789999999888766655443    1           358999999999999999999998853

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.93  E-value=1.2e-09  Score=96.67  Aligned_cols=100  Identities=17%  Similarity=0.219  Sum_probs=65.8

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCC
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGY  316 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~  316 (455)
                      ....++|+||+|+|||+|++++++.+   |..++.++...+...       ....++.+|+|||++.+..          
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~-------~~~~~~~lLilDE~~~~~~----------   97 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT-------DAAFEAEYLAVDQVEKLGN----------   97 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC-------GGGGGCSEEEEESTTCCCS----------
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH-------HHHhCCCEEEEeCccccCh----------
Confidence            35689999999999999999999988   777888887766443       1123578999999997532          


Q ss_pred             CCCcchhhHhhhhhhhhcccccCCCceEEEEEcC-CCCCCC--ccccCCCcee
Q 047029          317 DENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTN-YKERLD--PALLRPGRMD  366 (455)
Q Consensus       317 ~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN-~~~~Ld--~allRpGR~d  366 (455)
                         ..+   ..|++.++.....  +..++|+||| .++.+.  ++|.+  |+.
T Consensus        98 ---~~~---~~l~~li~~~~~~--g~~~iiits~~~p~~l~~~~~L~S--Rl~  140 (149)
T 2kjq_A           98 ---EEQ---ALLFSIFNRFRNS--GKGFLLLGSEYTPQQLVIREDLRT--RMA  140 (149)
T ss_dssp             ---HHH---HHHHHHHHHHHHH--TCCEEEEEESSCTTTSSCCHHHHH--HGG
T ss_pred             ---HHH---HHHHHHHHHHHHc--CCcEEEEECCCCHHHccccHHHHH--HHh
Confidence               112   3344444444332  2233556777 454443  66666  554

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=98.92  E-value=8.4e-08  Score=94.85  Aligned_cols=149  Identities=16%  Similarity=0.120  Sum_probs=91.8

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc-----C
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL-----R  278 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~-----~  278 (455)
                      ..-+.++|-++..+.|.+ +..                +.++++||+|+|||+|++.+++.++.+++.+++...     .
T Consensus        10 ~~~~~~~gR~~el~~L~~-l~~----------------~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (357)
T 2fna_A           10 DNRKDFFDREKEIEKLKG-LRA----------------PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYI   72 (357)
T ss_dssp             CSGGGSCCCHHHHHHHHH-TCS----------------SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCC
T ss_pred             CCHHHhcChHHHHHHHHH-hcC----------------CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchhhccccCC
Confidence            345667887666665554 421                489999999999999999999998777777776532     0


Q ss_pred             C-----------------------------------------------hHHHHHH---HHhhC-CceEEEEecccchhhh
Q 047029          279 S-----------------------------------------------NSDLRRL---LVSTG-NRSILVIEDIDCSIEL  307 (455)
Q Consensus       279 ~-----------------------------------------------~~~l~~l---l~~~~-~~~IL~iDEiD~l~~~  307 (455)
                      +                                               ...+..+   +.... .+.+|+|||++.+.. 
T Consensus        73 ~~~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~-  151 (357)
T 2fna_A           73 SYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVK-  151 (357)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGG-
T ss_pred             CHHHHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhc-
Confidence            1                                               0112222   22322 388999999998742 


Q ss_pred             hhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC---------CCccccCCCceeEEEEeCCCCHHH
Q 047029          308 ENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER---------LDPALLRPGRMDMHIHMSYLTPGG  378 (455)
Q Consensus       308 ~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~---------Ld~allRpGR~d~~I~~~~p~~~~  378 (455)
                                 ......+..|-..++..     .+..+|+|++....         ....+  .||+...++++..+.++
T Consensus       152 -----------~~~~~~~~~l~~~~~~~-----~~~~~i~~g~~~~~l~~~l~~~~~~~~l--~~r~~~~i~l~~l~~~e  213 (357)
T 2fna_A          152 -----------LRGVNLLPALAYAYDNL-----KRIKFIMSGSEMGLLYDYLRVEDPESPL--FGRAFSTVELKPFSREE  213 (357)
T ss_dssp             -----------CTTCCCHHHHHHHHHHC-----TTEEEEEEESSHHHHHHHTTTTCTTSTT--TTCCCEEEEECCCCHHH
T ss_pred             -----------cCchhHHHHHHHHHHcC-----CCeEEEEEcCchHHHHHHHhccCCCCcc--ccCccceeecCCCCHHH
Confidence                       00011122222222221     24566666654321         11122  34777889999999999


Q ss_pred             HHHHHHHhhc
Q 047029          379 FKILAFNYLK  388 (455)
Q Consensus       379 ~~~L~~~~l~  388 (455)
                      ..+++...++
T Consensus       214 ~~~~l~~~~~  223 (357)
T 2fna_A          214 AIEFLRRGFQ  223 (357)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988764

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.86  E-value=2.1e-08  Score=123.22  Aligned_cols=135  Identities=18%  Similarity=0.362  Sum_probs=95.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH-cCCcEEEEeccccCChHHHHHHHHhh------------------CCceEEEEecc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY-LKFDIYDMELASLRSNSDLRRLLVST------------------GNRSILVIEDI  301 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~-l~~~v~~l~~~~~~~~~~l~~ll~~~------------------~~~~IL~iDEi  301 (455)
                      .+.+||+||||||||++++..... .+..++.++++.-.+...+...+...                  .++.|+||||+
T Consensus      1304 ~~pvLL~GptGtGKT~li~~~L~~l~~~~~~~infS~~Tta~~l~~~~e~~~e~~~~~~~G~~~~p~~~Gk~~VlFiDDi 1383 (3245)
T 3vkg_A         1304 HRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLVVFCDEI 1383 (3245)
T ss_dssp             TCCCEEESSTTSSHHHHHHHHGGGCTTEEEEEECCCTTCCHHHHHHHHHHHEEEEECTTSCEEEEESSTTCEEEEEETTT
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhCCCCceEEEEeeCCCCHHHHHHHHhhcceEEeccCCCcccCCCcCCceEEEEeccc
Confidence            568999999999999887654444 47778889999888888887777521                  12369999999


Q ss_pred             cchhhhhhhcCCCCCCCCcchhhHhhhhhhhh--cccccCC------CceEEEEEcCCC-----CCCCccccCCCceeEE
Q 047029          302 DCSIELENRQCGGGYDENNSQVTLSGLLNFVD--GLWSSCG------DERIIVFTTNYK-----ERLDPALLRPGRMDMH  368 (455)
Q Consensus       302 D~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ld--g~~~~~~------~~~ivI~TTN~~-----~~Ld~allRpGR~d~~  368 (455)
                      +....          +.-..+..+.-|...+|  |++....      .+..+|+|+|++     ..|+++++|  ||.. 
T Consensus      1384 Nmp~~----------D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r--~F~v- 1450 (3245)
T 3vkg_A         1384 NLPST----------DKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLR--HAPI- 1450 (3245)
T ss_dssp             TCCCC----------CTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHT--TCCE-
T ss_pred             CCCCc----------cccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHh--hceE-
Confidence            85321          11112334455555555  2332211      346789999988     459999999  9964 


Q ss_pred             EEeCCCCHHHHHHHHHHhhc
Q 047029          369 IHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       369 I~~~~p~~~~~~~L~~~~l~  388 (455)
                      +.+++|+.++...|+..++.
T Consensus      1451 i~i~~ps~esL~~If~til~ 1470 (3245)
T 3vkg_A         1451 LLVDFPSTSSLTQIYGTFNR 1470 (3245)
T ss_dssp             EECCCCCHHHHHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHHHHH
Confidence            99999999999999877654

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.83  E-value=4.6e-07  Score=89.36  Aligned_cols=176  Identities=17%  Similarity=0.127  Sum_probs=101.4

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC---
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR---  278 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~---  278 (455)
                      ++..-+.++|-+...+.|.+.+..               .+.++++||+|+|||+|++.+++..+  ++.+++....   
T Consensus         7 ~~~~~~~~~gR~~el~~L~~~l~~---------------~~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~~~~~~~~   69 (350)
T 2qen_A            7 PKTRREDIFDREEESRKLEESLEN---------------YPLTLLLGIRRVGKSSLLRAFLNERP--GILIDCRELYAER   69 (350)
T ss_dssp             CCCSGGGSCSCHHHHHHHHHHHHH---------------CSEEEEECCTTSSHHHHHHHHHHHSS--EEEEEHHHHHHTT
T ss_pred             CCCChHhcCChHHHHHHHHHHHhc---------------CCeEEEECCCcCCHHHHHHHHHHHcC--cEEEEeecccccc
Confidence            344556788887777777665531               25899999999999999999999986  5556553221   


Q ss_pred             ---Ch------------------------------------HHHHHH---HHhh---CCceEEEEecccchhhhhhhcCC
Q 047029          279 ---SN------------------------------------SDLRRL---LVST---GNRSILVIEDIDCSIELENRQCG  313 (455)
Q Consensus       279 ---~~------------------------------------~~l~~l---l~~~---~~~~IL~iDEiD~l~~~~~~~~~  313 (455)
                         +.                                    ..+..+   +...   ..+.+|+|||++.+....     
T Consensus        70 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~-----  144 (350)
T 2qen_A           70 GHITREELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYG-----  144 (350)
T ss_dssp             TCBCHHHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBT-----
T ss_pred             cCCCHHHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccC-----
Confidence               10                                    112222   2211   138899999999874200     


Q ss_pred             CCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC---------CCCccccCCCceeEEEEeCCCCHHHHHHHHH
Q 047029          314 GGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE---------RLDPALLRPGRMDMHIHMSYLTPGGFKILAF  384 (455)
Q Consensus       314 ~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~---------~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~  384 (455)
                          .......+..|...++..     .++.+|+|+....         .....+.  ||....++++..+.++..+++.
T Consensus       145 ----~~~~~~~~~~L~~~~~~~-----~~~~~il~g~~~~~l~~~l~~~~~~~~l~--~~~~~~i~l~pl~~~e~~~~l~  213 (350)
T 2qen_A          145 ----SRGGKELLALFAYAYDSL-----PNLKIILTGSEVGLLHDFLKITDYESPLY--GRIAGEVLVKPFDKDTSVEFLK  213 (350)
T ss_dssp             ----TTTTHHHHHHHHHHHHHC-----TTEEEEEEESSHHHHHHHHCTTCTTSTTT--TCCCEEEECCCCCHHHHHHHHH
T ss_pred             ----ccchhhHHHHHHHHHHhc-----CCeEEEEECCcHHHHHHHHhhcCCCCccc--cCccceeeCCCCCHHHHHHHHH
Confidence                001112223233333332     2455666654321         1122222  4776789999999999999998


Q ss_pred             HhhcccCCCc-hHHHHHhhccccCchh
Q 047029          385 NYLKIKSHSM-FDEIEELIKEVEVTPA  410 (455)
Q Consensus       385 ~~l~~~~~~l-~~ei~~ll~~~~~tpa  410 (455)
                      ..++..+... .+.+..+.....-.|.
T Consensus       214 ~~~~~~~~~~~~~~~~~i~~~tgG~P~  240 (350)
T 2qen_A          214 RGFREVNLDVPENEIEEAVELLDGIPG  240 (350)
T ss_dssp             HHHHTTTCCCCHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCCCCHHHHHHHHHHhCCCHH
Confidence            8765433222 2344444444444454

>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=98.82  E-value=2.5e-09  Score=106.01  Aligned_cols=116  Identities=13%  Similarity=0.117  Sum_probs=67.8

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEec--cc----cC-C-hHHHHHHHHhhCCceEEEEecccchhhhh
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL--AS----LR-S-NSDLRRLLVSTGNRSILVIEDIDCSIELE  308 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~--~~----~~-~-~~~l~~ll~~~~~~~IL~iDEiD~l~~~~  308 (455)
                      |++..+.++|+||||||||+|+.++|...+..+..++.  .+    .. . ...+..+.....+..+||||+++.+....
T Consensus       119 Gi~~gsviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~~LLVIDsI~aL~~~~  198 (331)
T 2vhj_A          119 HRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHRVIVIDSLKNVIGAA  198 (331)
T ss_dssp             EEEESEEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCSEEEEECCTTTC---
T ss_pred             CCCCCcEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhCCEEEEeccccccccc
Confidence            55666778999999999999999999876555433333  11    11 1 12222222222221299999999875421


Q ss_pred             hhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccc
Q 047029          309 NRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPAL  359 (455)
Q Consensus       309 ~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~al  359 (455)
                      ...    ...+.....+.+++..|+++...  .++.+|++|| +...|+++
T Consensus       199 ~~~----s~~G~v~~~lrqlL~~L~~~~k~--~gvtVIlttn-p~s~deal  242 (331)
T 2vhj_A          199 GGN----TTSGGISRGAFDLLSDIGAMAAS--RGCVVIASLN-PTSNDDKI  242 (331)
T ss_dssp             ------------CCHHHHHHHHHHHHHHHH--HTCEEEEECC-CSSCSSSH
T ss_pred             ccc----cccchHHHHHHHHHHHHHHHHhh--CCCEEEEEeC-CcccchhH
Confidence            110    01112235567788877776554  3467888888 55666664

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.82  E-value=7e-09  Score=96.27  Aligned_cols=120  Identities=17%  Similarity=0.187  Sum_probs=76.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc--------C-CcEEEEeccccCC---------------------hHHHHHHHH-hh
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL--------K-FDIYDMELASLRS---------------------NSDLRRLLV-ST  290 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l--------~-~~v~~l~~~~~~~---------------------~~~l~~ll~-~~  290 (455)
                      --+|++|+||||||++|.+++...        | .+++..++..+..                     ...+...+. ..
T Consensus         6 mi~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~   85 (199)
T 2r2a_A            6 EICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKSTDEQLSAHDMYEWIKKPE   85 (199)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEEEECCTTTCSSCCSSCEEGGGHHHHTTSGG
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccccchhhhhccccCcccccHHHHHHHhhccc
Confidence            468999999999999998875443        3 6666555443310                     122232210 12


Q ss_pred             CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEE
Q 047029          291 GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIH  370 (455)
Q Consensus       291 ~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~  370 (455)
                      ..++||+|||++.+++.+.  ..     .+.    ..++..+...   .....-||++|++++.||.++++  |++.+++
T Consensus        86 ~~~~vliIDEAq~l~~~~~--~~-----~e~----~rll~~l~~~---r~~~~~iil~tq~~~~l~~~lr~--ri~~~~~  149 (199)
T 2r2a_A           86 NIGSIVIVDEAQDVWPARS--AG-----SKI----PENVQWLNTH---RHQGIDIFVLTQGPKLLDQNLRT--LVRKHYH  149 (199)
T ss_dssp             GTTCEEEETTGGGTSBCCC--TT-----CCC----CHHHHGGGGT---TTTTCEEEEEESCGGGBCHHHHT--TEEEEEE
T ss_pred             cCceEEEEEChhhhccCcc--cc-----chh----HHHHHHHHhc---CcCCeEEEEECCCHHHHhHHHHH--HhheEEE
Confidence            3489999999999864110  00     011    1244444432   12456778889989999999998  9999999


Q ss_pred             eCCCCHH
Q 047029          371 MSYLTPG  377 (455)
Q Consensus       371 ~~~p~~~  377 (455)
                      +..|...
T Consensus       150 l~~~~~~  156 (199)
T 2r2a_A          150 IASNKMG  156 (199)
T ss_dssp             EEECSSC
T ss_pred             EcCcccC
Confidence            9886543

>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=98.75  E-value=4.4e-08  Score=94.63  Aligned_cols=122  Identities=18%  Similarity=0.185  Sum_probs=71.3

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCC
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDE  318 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~  318 (455)
                      +++++++||||||||||+++.|+|+.++.. -.++.+.    +  ...+.....+.|++.||....-+            
T Consensus       102 ~~~n~~~l~GppgtGKt~~a~ala~~~~l~-G~vn~~~----~--~f~l~~~~~k~i~l~Ee~~~~~d------------  162 (267)
T 1u0j_A          102 GKRNTIWLFGPATTGKTNIAEAIAHTVPFY-GCVNWTN----E--NFPFNDCVDKMVIWWEEGKMTAK------------  162 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHSSCE-EECCTTC----S--SCTTGGGSSCSEEEECSCCEETT------------
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHhhhccc-ceeeccc----c--ccccccccccEEEEeccccchhH------------
Confidence            446789999999999999999999987542 2222221    1  11344455667888888775421            


Q ss_pred             CcchhhHhhhhh----hhhccccc--CCCceEEEEEcCC-C----------CCCCccccCCCceeEEEEeC--------C
Q 047029          319 NNSQVTLSGLLN----FVDGLWSS--CGDERIIVFTTNY-K----------ERLDPALLRPGRMDMHIHMS--------Y  373 (455)
Q Consensus       319 ~~~~~~ls~LL~----~ldg~~~~--~~~~~ivI~TTN~-~----------~~Ld~allRpGR~d~~I~~~--------~  373 (455)
                        ....+..++.    .+|.....  .-....+|+|||. +          +...++|.+  |+ ..+.|.        .
T Consensus       163 --~~~~lr~i~~G~~~~id~K~k~~~~v~~tPvIitsN~~i~~~~~g~~~s~~~~~~L~s--R~-~~f~F~~~~p~~~~~  237 (267)
T 1u0j_A          163 --VVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQD--RM-FKFELTRRLDHDFGK  237 (267)
T ss_dssp             --THHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHT--TE-EEEECCSCCCTTSCC
T ss_pred             --HHHHHHHHhCCCcEEEecCcCCcccccCCCEEEEecCCcccccccCccchhhhHHHhh--hE-EEEECCCcCCcccCC
Confidence              1112222222    11211110  0023467888886 2          245578888  88 678887        5


Q ss_pred             CCHHHHHHHHH
Q 047029          374 LTPGGFKILAF  384 (455)
Q Consensus       374 p~~~~~~~L~~  384 (455)
                      .+.++-+..+.
T Consensus       238 lt~~~~~~f~~  248 (267)
T 1u0j_A          238 VTKQEVKDFFR  248 (267)
T ss_dssp             CCHHHHHHHHH
T ss_pred             CCHHHHHHHHH
Confidence            66677666665

>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=98.73  E-value=3.8e-08  Score=120.27  Aligned_cols=126  Identities=20%  Similarity=0.191  Sum_probs=95.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhC-CceEEEEecccchhhhhhhcCCCCCCCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTG-NRSILVIEDIDCSIELENRQCGGGYDEN  319 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~-~~~IL~iDEiD~l~~~~~~~~~~~~~~~  319 (455)
                      ..|.+++||+|||||++++++|+.+|.+++.++|++-.+...+.++|..+. .++++++||++.+-.             
T Consensus       645 ~~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~nc~e~ld~~~lg~~~~g~~~~Gaw~~~DE~nr~~~-------------  711 (2695)
T 4akg_A          645 KYGGCFFGPAGTGKTETVKAFGQNLGRVVVVFNCDDSFDYQVLSRLLVGITQIGAWGCFDEFNRLDE-------------  711 (2695)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHTTTCCCEEEETTSSCCHHHHHHHHHHHHHHTCEEEEETTTSSCH-------------
T ss_pred             CCCCcccCCCCCCcHHHHHHHHHHhCCcEEEEECCCCCChhHhhHHHHHHHhcCCEeeehhhhhcCh-------------
Confidence            568999999999999999999999999999999999888888888886654 479999999998632             


Q ss_pred             cchhhHhhh-------hhhh---------hcccccCCCceEEEEEcC----CCCCCCccccCCCceeEEEEeCCCCHHHH
Q 047029          320 NSQVTLSGL-------LNFV---------DGLWSSCGDERIIVFTTN----YKERLDPALLRPGRMDMHIHMSYLTPGGF  379 (455)
Q Consensus       320 ~~~~~ls~L-------L~~l---------dg~~~~~~~~~ivI~TTN----~~~~Ld~allRpGR~d~~I~~~~p~~~~~  379 (455)
                         .+++.+       ++.+         +|-.-....+..|++|.|    ....|+++|.+  || +.|.|.+|+.+..
T Consensus       712 ---evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk~--~F-r~v~m~~Pd~~~i  785 (2695)
T 4akg_A          712 ---KVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKK--SF-REFSMKSPQSGTI  785 (2695)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHHT--TE-EEEECCCCCHHHH
T ss_pred             ---HHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHHh--he-EEEEeeCCCHHHH
Confidence               222322       1221         111111123456788998    34679999999  88 6899999999887


Q ss_pred             HHHHHH
Q 047029          380 KILAFN  385 (455)
Q Consensus       380 ~~L~~~  385 (455)
                      .++.-.
T Consensus       786 ~ei~l~  791 (2695)
T 4akg_A          786 AEMILQ  791 (2695)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776543

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=98.62  E-value=4.7e-07  Score=91.68  Aligned_cols=153  Identities=18%  Similarity=0.220  Sum_probs=97.1

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCc--EEEEeccccCChHHHHH
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD--IYDMELASLRSNSDLRR  285 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~--v~~l~~~~~~~~~~l~~  285 (455)
                      .++|......++.+.+.....           ....+|++|++||||+.+++++....+..  ++.++|+.+...-.-..
T Consensus       130 ~~ig~s~~~~~~~~~~~~~a~-----------~~~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~~~~  198 (368)
T 3dzd_A          130 EFVGEHPKILEIKRLIPKIAK-----------SKAPVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELAESE  198 (368)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHT-----------SCSCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTHHHH
T ss_pred             cccccchHHHHHHhhhhhhhc-----------cchhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHHHHH
Confidence            466766666666665543221           14569999999999999999999987543  99999998754333333


Q ss_pred             HHH-----------------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc-cccCCC------
Q 047029          286 LLV-----------------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL-WSSCGD------  341 (455)
Q Consensus       286 ll~-----------------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~-~~~~~~------  341 (455)
                      +|.                 ....+..||||||+.+..                .....||..++.- ....|+      
T Consensus       199 lfg~~~g~~tga~~~~~g~~~~a~~gtlfldei~~l~~----------------~~Q~~Ll~~l~~~~~~~~g~~~~~~~  262 (368)
T 3dzd_A          199 LFGHEKGAFTGALTRKKGKLELADQGTLFLDEVGELDQ----------------RVQAKLLRVLETGSFTRLGGNQKIEV  262 (368)
T ss_dssp             HHEECSCSSSSCCCCEECHHHHTTTSEEEEETGGGSCH----------------HHHHHHHHHHHHSEECCBTCCCBEEC
T ss_pred             hcCccccccCCcccccCChHhhcCCCeEEecChhhCCH----------------HHHHHHHHHHHhCCcccCCCCcceee
Confidence            331                 123457899999998743                3455677776532 121121      


Q ss_pred             ceEEEEEcCCC-------CCCCccccCCCcee-EEEEeCCCCH--HHHHHHHHHhhcc
Q 047029          342 ERIIVFTTNYK-------ERLDPALLRPGRMD-MHIHMSYLTP--GGFKILAFNYLKI  389 (455)
Q Consensus       342 ~~ivI~TTN~~-------~~Ld~allRpGR~d-~~I~~~~p~~--~~~~~L~~~~l~~  389 (455)
                      ++-+|++||..       ..+.+.|..  |+. ..|++|+...  +....|+.+|+..
T Consensus       263 ~~rii~at~~~l~~~v~~g~fr~dL~~--rl~~~~i~lPpLreR~~Di~~l~~~~l~~  318 (368)
T 3dzd_A          263 DIRVISATNKNLEEEIKKGNFREDLYY--RLSVFQIYLPPLRERGKDVILLAEYFLKK  318 (368)
T ss_dssp             CCEEEEEESSCHHHHHHTTSSCHHHHH--HHTSEEEECCCGGGSTTHHHHHHHHHHHH
T ss_pred             eeEEEEecCCCHHHHHHcCCccHHHHH--HhCCeEEeCCChhhchhhHHHHHHHHHHH
Confidence            35588888853       123333433  333 3678887766  6677788877753

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=98.59  E-value=3.1e-07  Score=93.59  Aligned_cols=154  Identities=15%  Similarity=0.188  Sum_probs=95.6

Q ss_pred             CcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC---CcEEEEeccccCChHH
Q 047029          206 FDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---FDIYDMELASLRSNSD  282 (455)
Q Consensus       206 fd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~---~~v~~l~~~~~~~~~~  282 (455)
                      ++.+++....-+++.+.+....           +....+|++|++||||+++|+++....+   .+++.++|+.+...--
T Consensus       136 ~~~~ig~s~~m~~l~~~i~~~a-----------~~~~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~  204 (387)
T 1ny5_A          136 EEEYVFESPKMKEILEKIKKIS-----------CAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIF  204 (387)
T ss_dssp             CCCCCCCSHHHHHHHHHHHHHT-----------TCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHH
T ss_pred             chhhhhccHHhhHHHHHHHHhc-----------CCCCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHH
Confidence            4456776666666666555321           1245789999999999999999998874   6899999998643221


Q ss_pred             HHHHHH-----------------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc-cccC-----
Q 047029          283 LRRLLV-----------------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL-WSSC-----  339 (455)
Q Consensus       283 l~~ll~-----------------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~-~~~~-----  339 (455)
                      -.++|.                 ....+++||||||+.+..                .....|+..++.. ....     
T Consensus       205 ~~elfg~~~g~~tga~~~~~g~~~~a~~gtlfldei~~l~~----------------~~q~~Ll~~l~~~~~~~~g~~~~  268 (387)
T 1ny5_A          205 EAELFGYEKGAFTGAVSSKEGFFELADGGTLFLDEIGELSL----------------EAQAKLLRVIESGKFYRLGGRKE  268 (387)
T ss_dssp             HHHHHCBCTTSSTTCCSCBCCHHHHTTTSEEEEESGGGCCH----------------HHHHHHHHHHHHSEECCBTCCSB
T ss_pred             HHHhcCCCCCCCCCcccccCCceeeCCCcEEEEcChhhCCH----------------HHHHHHHHHHhcCcEEeCCCCce
Confidence            222331                 123457999999998743                3445566666531 1111     


Q ss_pred             -CCceEEEEEcCCC-------CCCCccccCCCce-eEEEEeCCCCH--HHHHHHHHHhhc
Q 047029          340 -GDERIIVFTTNYK-------ERLDPALLRPGRM-DMHIHMSYLTP--GGFKILAFNYLK  388 (455)
Q Consensus       340 -~~~~ivI~TTN~~-------~~Ld~allRpGR~-d~~I~~~~p~~--~~~~~L~~~~l~  388 (455)
                       ..++.||+|||..       ..+.+.|.-  |+ ...|++|+...  +....|+..|+.
T Consensus       269 ~~~~~rii~at~~~l~~~~~~g~fr~dl~~--rl~~~~i~lPpLreR~~Di~~l~~~~l~  326 (387)
T 1ny5_A          269 IEVNVRILAATNRNIKELVKEGKFREDLYY--RLGVIEIEIPPLRERKEDIIPLANHFLK  326 (387)
T ss_dssp             EECCCEEEEEESSCHHHHHHTTSSCHHHHH--HHTTEEEECCCGGGCHHHHHHHHHHHHH
T ss_pred             eeccEEEEEeCCCCHHHHHHcCCccHHHHH--hhcCCeecCCcchhccccHHHHHHHHHH
Confidence             1245688999863       223333332  33 25567766543  566677777764

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=98.58  E-value=3.2e-08  Score=102.40  Aligned_cols=141  Identities=16%  Similarity=0.104  Sum_probs=84.3

Q ss_pred             cccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHH-HHHcCCcEEEEeccccCChHHHH---
Q 047029          209 LAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAM-ANYLKFDIYDMELASLRSNSDLR---  284 (455)
Q Consensus       209 l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~al-A~~l~~~v~~l~~~~~~~~~~l~---  284 (455)
                      +.|++.+|+.|.-.+..   +-..     ....-++||.|+||| ||++++++ ++.+....+......  +...+.   
T Consensus       215 I~G~e~vK~aLll~L~G---G~~k-----~rgdihVLL~G~PGt-KS~Lar~i~~~i~pR~~ft~g~~s--s~~gLt~s~  283 (506)
T 3f8t_A          215 LPGAEEVGKMLALQLFS---CVGK-----NSERLHVLLAGYPVV-CSEILHHVLDHLAPRGVYVDLRRT--ELTDLTAVL  283 (506)
T ss_dssp             STTCHHHHHHHHHHHTT---CCSS-----GGGCCCEEEESCHHH-HHHHHHHHHHHTCSSEEEEEGGGC--CHHHHSEEE
T ss_pred             cCCCHHHHHHHHHHHcC---Cccc-----cCCceeEEEECCCCh-HHHHHHHHHHHhCCCeEEecCCCC--CccCceEEE
Confidence            77888888777554421   0000     111226999999999 99999999 777655554322111  111111   


Q ss_pred             ---------HHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc-c----cCCCceEEEEEcC
Q 047029          285 ---------RLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW-S----SCGDERIIVFTTN  350 (455)
Q Consensus       285 ---------~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~-~----~~~~~~ivI~TTN  350 (455)
                               .-........|+|+|||+.+.                ..+++.|++.|+.-. +    ..+....||+|+|
T Consensus       284 r~~tG~~~~~G~l~LAdgGvl~lDEIn~~~----------------~~~qsaLlEaMEe~~VtI~G~~lparf~VIAA~N  347 (506)
T 3f8t_A          284 KEDRGWALRAGAAVLADGGILAVDHLEGAP----------------EPHRWALMEAMDKGTVTVDGIALNARCAVLAAIN  347 (506)
T ss_dssp             EESSSEEEEECHHHHTTTSEEEEECCTTCC----------------HHHHHHHHHHHHHSEEEETTEEEECCCEEEEEEC
T ss_pred             EcCCCcccCCCeeEEcCCCeeehHhhhhCC----------------HHHHHHHHHHHhCCcEEECCEEcCCCeEEEEEeC
Confidence                     000112356899999999763                255677777776211 0    2234578999999


Q ss_pred             CCC-----------CCCccccCCCceeEEE-EeCCCCHHH
Q 047029          351 YKE-----------RLDPALLRPGRMDMHI-HMSYLTPGG  378 (455)
Q Consensus       351 ~~~-----------~Ld~allRpGR~d~~I-~~~~p~~~~  378 (455)
                      +.+           .|+++++.  |||+.+ .+++|+.+.
T Consensus       348 P~~~yd~~~s~~~~~Lp~alLD--RFDLi~i~~d~pd~e~  385 (506)
T 3f8t_A          348 PGEQWPSDPPIARIDLDQDFLS--HFDLIAFLGVDPRPGE  385 (506)
T ss_dssp             CCC--CCSCGGGGCCSCHHHHT--TCSEEEETTC------
T ss_pred             cccccCCCCCccccCCChHHhh--heeeEEEecCCCChhH
Confidence            875           78899999  998755 457777654

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.43  E-value=7.8e-07  Score=109.67  Aligned_cols=130  Identities=17%  Similarity=0.119  Sum_probs=96.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhC-CceEEEEecccchhhhhhhcCCCCCCCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTG-NRSILVIEDIDCSIELENRQCGGGYDEN  319 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~-~~~IL~iDEiD~l~~~~~~~~~~~~~~~  319 (455)
                      ..|..++||+|||||.+++++|+.+|..++.++|+.-.+...+.++|.... .++..++||++.+-.             
T Consensus       604 ~~gg~~~GPaGtGKTet~k~La~~lgr~~~vfnC~~~~d~~~~g~i~~G~~~~GaW~cfDEfNrl~~-------------  670 (3245)
T 3vkg_A          604 RMGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFDLQAMSRIFVGLCQCGAWGCFDEFNRLEE-------------  670 (3245)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHTTCCEEEEECSSCCCHHHHHHHHHHHHHHTCEEEEETTTSSCH-------------
T ss_pred             cCCCCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHhhHhhcCcEEEehhhhcCCH-------------
Confidence            457789999999999999999999999999999998877778888886654 578999999998632             


Q ss_pred             cchhhHhhhhhhhh-----------------cccccCCCceEEEEEcCC----CCCCCccccCCCceeEEEEeCCCCHHH
Q 047029          320 NSQVTLSGLLNFVD-----------------GLWSSCGDERIIVFTTNY----KERLDPALLRPGRMDMHIHMSYLTPGG  378 (455)
Q Consensus       320 ~~~~~ls~LL~~ld-----------------g~~~~~~~~~ivI~TTN~----~~~Ld~allRpGR~d~~I~~~~p~~~~  378 (455)
                         .+++-+...+.                 |-.-.-..+.-|++|.|+    ...|+++|..  || +.|.|.+|+.+.
T Consensus       671 ---~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~--lF-r~v~m~~Pd~~~  744 (3245)
T 3vkg_A          671 ---RILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKK--LF-RSMAMIKPDREM  744 (3245)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHT--TE-EEEECCSCCHHH
T ss_pred             ---HHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHh--hc-EEEEEeCCCHHH
Confidence               22332222221                 211111234568889984    4679999999  99 679999999998


Q ss_pred             HHHHHHHhhcc
Q 047029          379 FKILAFNYLKI  389 (455)
Q Consensus       379 ~~~L~~~~l~~  389 (455)
                      ..++.-.-.+.
T Consensus       745 i~ei~L~s~Gf  755 (3245)
T 3vkg_A          745 IAQVMLYSQGF  755 (3245)
T ss_dssp             HHHHHHHTTTC
T ss_pred             HHHHHHHHccc
Confidence            87776554443

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=98.41  E-value=4.1e-07  Score=108.21  Aligned_cols=111  Identities=13%  Similarity=0.142  Sum_probs=71.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC---------------------ChHHHHHHHH---h
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR---------------------SNSDLRRLLV---S  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~---------------------~~~~l~~ll~---~  289 (455)
                      |++.+++++||||||||||+||.++|.+.   |..+..++.....                     ....+.+.+.   .
T Consensus      1423 Gi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~a~~~G~dl~~l~v~~~~~~E~~l~~~~~lvr 1502 (2050)
T 3cmu_A         1423 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR 1502 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHHHHHcCCCchhceeecCChHHHHHHHHHHHHh
Confidence            47788999999999999999999998876   5566666654321                     1123333333   2


Q ss_pred             hCCceEEEEecccchhhhhhhcCCCCCCCCc--chhhHhhhhhhhhcccccCCCceEEEEEcCC
Q 047029          290 TGNRSILVIEDIDCSIELENRQCGGGYDENN--SQVTLSGLLNFVDGLWSSCGDERIIVFTTNY  351 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~--~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~  351 (455)
                      ..++++||||+++.+.+....+.. ..+...  ....++++|..|++....   ..++|++||.
T Consensus      1503 ~~~~~lVVIDsi~al~p~~~~~g~-~~~~~~~~~~R~lsqlL~~L~~~~~~---~~v~VI~tNq 1562 (2050)
T 3cmu_A         1503 SGAVDVIVVDSVAALTPKAEIEGE-IGDSHMGLAARMMSQAMRKLAGNLKQ---SNTLLIFINQ 1562 (2050)
T ss_dssp             HTCCSEEEESCGGGCCCHHHHHSC-TTCCCTTHHHHHHHHHHHHHHHHHHT---TTCEEEEEEC
T ss_pred             cCCCCEEEEcChhHhccccccccc-ccccccchHHHHHHHHHHHHHHHHHh---CCcEEEEEcc
Confidence            367999999999988763322111 111111  345678888888887664   2355556663

>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=98.14  E-value=7.1e-06  Score=74.41  Aligned_cols=27  Identities=26%  Similarity=0.513  Sum_probs=23.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDI  269 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v  269 (455)
                      .+.|.||+|+|||||++.+++.++..+
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i~~   28 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGKRA   28 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGGGE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcC
Confidence            478999999999999999999986544

>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=98.06  E-value=2.6e-05  Score=77.51  Aligned_cols=134  Identities=15%  Similarity=0.126  Sum_probs=87.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CC-cEEEEeccccCChHHHHHHHHhh------CCceEEEEecccc-hhhhhh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KF-DIYDMELASLRSNSDLRRLLVST------GNRSILVIEDIDC-SIELEN  309 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~-~v~~l~~~~~~~~~~l~~ll~~~------~~~~IL~iDEiD~-l~~~~~  309 (455)
                      ...||||||+|+||++.++++++.+   +. +...+...   ...++++++...      ..+.|++|||++. +.    
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~plf~~~kvvii~~~~~kl~----   90 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSID---PNTDWNAIFSLCQAMSLFASRQTLLLLLPENGPN----   90 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECC---TTCCHHHHHHHHHHHHHCCSCEEEEEECCSSCCC----
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEec---CCCCHHHHHHHhcCcCCccCCeEEEEECCCCCCC----
Confidence            5689999999999999999999876   33 21222222   223445554332      3578999999986 42    


Q ss_pred             hcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC------CCCCccccCCCceeEEEEeCCCCHHHHHHHH
Q 047029          310 RQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK------ERLDPALLRPGRMDMHIHMSYLTPGGFKILA  383 (455)
Q Consensus       310 ~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~------~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~  383 (455)
                                  ....+.|+..++..    +++.++|++|+.+      ..+-+++..  |+ ..+++..++.++....+
T Consensus        91 ------------~~~~~aLl~~le~p----~~~~~~il~~~~~~~~~~~~k~~~~i~s--r~-~~~~~~~l~~~~l~~~l  151 (343)
T 1jr3_D           91 ------------AAINEQLLTLTGLL----HDDLLLIVRGNKLSKAQENAAWFTALAN--RS-VQVTCQTPEQAQLPRWV  151 (343)
T ss_dssp             ------------TTHHHHHHHHHTTC----BTTEEEEEEESCCCTTTTTSHHHHHHTT--TC-EEEEECCCCTTHHHHHH
T ss_pred             ------------hHHHHHHHHHHhcC----CCCeEEEEEcCCCChhhHhhHHHHHHHh--Cc-eEEEeeCCCHHHHHHHH
Confidence                        12345577776643    2346666655543      345667777  66 57999999999988888


Q ss_pred             HHhhcccCCCchHHHHH
Q 047029          384 FNYLKIKSHSMFDEIEE  400 (455)
Q Consensus       384 ~~~l~~~~~~l~~ei~~  400 (455)
                      +..+...+....++..+
T Consensus       152 ~~~~~~~g~~i~~~a~~  168 (343)
T 1jr3_D          152 AARAKQLNLELDDAANQ  168 (343)
T ss_dssp             HHHHHHTTCEECHHHHH
T ss_pred             HHHHHHcCCCCCHHHHH
Confidence            88876655444444333

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.92  E-value=0.00018  Score=76.47  Aligned_cols=164  Identities=21%  Similarity=0.210  Sum_probs=90.4

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHH-------cCCcEEEEecc
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANY-------LKFDIYDMELA  275 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~-------l~~~v~~l~~~  275 (455)
                      |..-..++|-+...++|.+.+..           +....+-++++||+|+|||+||..+++.       +...++.++++
T Consensus       120 P~~~~~~vGR~~~l~~L~~~L~~-----------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~  188 (591)
T 1z6t_A          120 PQRPVVFVTRKKLVNAIQQKLSK-----------LKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVG  188 (591)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHTT-----------STTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEE
T ss_pred             CCCCCeecccHHHHHHHHHHHhc-----------ccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECC
Confidence            44456688888877777665531           0122457999999999999999999753       22234544443


Q ss_pred             ccCCh---------------------------H----HHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhh
Q 047029          276 SLRSN---------------------------S----DLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVT  324 (455)
Q Consensus       276 ~~~~~---------------------------~----~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~  324 (455)
                      .....                           .    .++..+....++.+|||||++...                   
T Consensus       189 ~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~-------------------  249 (591)
T 1z6t_A          189 KQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSW-------------------  249 (591)
T ss_dssp             SCCHHHHHHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHH-------------------
T ss_pred             CCchHHHHHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHH-------------------
Confidence            22100                           1    122222222357899999997421                   


Q ss_pred             HhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEe-CCCCHHHHHHHHHHhhcccCCCchHHHHHhhc
Q 047029          325 LSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHM-SYLTPGGFKILAFNYLKIKSHSMFDEIEELIK  403 (455)
Q Consensus       325 ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~-~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~  403 (455)
                         .+..+       +.+..||+||........  .. |.. ..+.. +..+.++-.+|+..+.+.......+.+.++++
T Consensus       250 ---~l~~l-------~~~~~ilvTsR~~~~~~~--~~-~~~-~~v~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~i~~  315 (591)
T 1z6t_A          250 ---VLKAF-------DSQCQILLTTRDKSVTDS--VM-GPK-YVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIK  315 (591)
T ss_dssp             ---HHHTT-------CSSCEEEEEESCGGGGTT--CC-SCE-EEEECCSSCCHHHHHHHHHHHHTSCGGGSCTHHHHHHH
T ss_pred             ---HHHHh-------cCCCeEEEECCCcHHHHh--cC-CCc-eEeecCCCCCHHHHHHHHHHHhCCCcccccHHHHHHHH
Confidence               11111       123456677775432111  11 222 23332 46788888899988876432222344555555


Q ss_pred             cccCchh
Q 047029          404 EVEVTPA  410 (455)
Q Consensus       404 ~~~~tpa  410 (455)
                      ...--|.
T Consensus       316 ~~~G~PL  322 (591)
T 1z6t_A          316 ECKGSPL  322 (591)
T ss_dssp             HHTTCHH
T ss_pred             HhCCCcH
Confidence            5555555

>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=97.88  E-value=6.4e-05  Score=69.04  Aligned_cols=40  Identities=20%  Similarity=0.164  Sum_probs=32.3

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS  276 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~  276 (455)
                      |++...-++|+||||+|||+++..+|...+..++.++...
T Consensus        16 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~~~   55 (220)
T 2cvh_A           16 GFAPGVLTQVYGPYASGKTTLALQTGLLSGKKVAYVDTEG   55 (220)
T ss_dssp             SBCTTSEEEEECSTTSSHHHHHHHHHHHHCSEEEEEESSC
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHHcCCcEEEEECCC
Confidence            5666677999999999999999999985566777666543

>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=97.81  E-value=7.4e-05  Score=69.73  Aligned_cols=40  Identities=18%  Similarity=0.146  Sum_probs=31.0

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHH--c-------CCcEEEEeccc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANY--L-------KFDIYDMELAS  276 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~--l-------~~~v~~l~~~~  276 (455)
                      |++...-++|+||||+|||+|+..+|..  +       +..++.++...
T Consensus        20 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~   68 (243)
T 1n0w_A           20 GIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEG   68 (243)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             CCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCC
Confidence            5666777999999999999999999985  3       34566665443

>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=97.79  E-value=9.3e-05  Score=74.42  Aligned_cols=113  Identities=13%  Similarity=0.133  Sum_probs=64.1

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC---------------------ChHHHHHHHH---h
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR---------------------SNSDLRRLLV---S  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~---------------------~~~~l~~ll~---~  289 (455)
                      |++...-++|+||||+|||+|+..+|..+   +..+..++.....                     +..++...+.   .
T Consensus        57 Gi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~  136 (356)
T 3hr8_A           57 GYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGEQALEIVDELVR  136 (356)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchHHHHHcCCchhhhhhhhccCHHHHHHHHHHHhh
Confidence            56666779999999999999999999875   5566666654321                     1122222222   2


Q ss_pred             hCCceEEEEecccchhhhhhhcCCCCCC-CCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC
Q 047029          290 TGNRSILVIEDIDCSIELENRQCGGGYD-ENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK  352 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~~~~~~~~~~~~~-~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~  352 (455)
                      ...+.+++||.+..+.+...-....+.. .......+++++..+..+....  +..||+ +|+.
T Consensus       137 ~~~~dlvVIDSi~~l~~~~el~g~~G~~q~~~qar~la~~L~~L~~lak~~--~~tVI~-inqv  197 (356)
T 3hr8_A          137 SGVVDLIVVDSVAALVPRAEIEGAMGDMQVGLQARLMSQALRKIAGSVNKS--KAVVIF-TNQI  197 (356)
T ss_dssp             TSCCSEEEEECTTTCCCHHHHTTCCCSSCSSHHHHHHHHHHHHHHHHHHTS--SCEEEE-EEES
T ss_pred             hcCCCeEEehHhhhhcChhhhcccchhhHHHHHHHHHHHHHHHHHHHHHhc--CCEEEE-Eeee
Confidence            2467899999998876411111111000 0112345566666666664432  344444 3444

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.78  E-value=0.00011  Score=67.91  Aligned_cols=37  Identities=22%  Similarity=0.073  Sum_probs=28.3

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      |++....++|+||||+|||+|++.+|..+   +..++.++
T Consensus        19 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~   58 (235)
T 2w0m_A           19 GIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVT   58 (235)
T ss_dssp             SEETTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             CCcCCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            45556679999999999999999999765   44554443

>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=97.70  E-value=0.0006  Score=78.17  Aligned_cols=165  Identities=18%  Similarity=0.171  Sum_probs=95.3

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc-------CCcEEEEec
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL-------KFDIYDMEL  274 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l-------~~~v~~l~~  274 (455)
                      .|..-..++|-++..++|.+.|...           -...+-+.|+|++|+|||+||+.+++..       ...++.+++
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~-----------~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~  187 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKL-----------NGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSI  187 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTT-----------TTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEEC
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhc-----------cCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEE
Confidence            4555667889888888877766310           1124568899999999999999988752       223445554


Q ss_pred             cccC---------------------------ChHHHHHHHHhh----CCceEEEEecccchhhhhhhcCCCCCCCCcchh
Q 047029          275 ASLR---------------------------SNSDLRRLLVST----GNRSILVIEDIDCSIELENRQCGGGYDENNSQV  323 (455)
Q Consensus       275 ~~~~---------------------------~~~~l~~ll~~~----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~  323 (455)
                      +...                           ....+...+...    .++.+|||||++....                 
T Consensus       188 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~-----------------  250 (1249)
T 3sfz_A          188 GKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWV-----------------  250 (1249)
T ss_dssp             CSCCHHHHHHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHH-----------------
T ss_pred             CCcCchHHHHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHH-----------------
Confidence            4311                           011222222211    3378999999985311                 


Q ss_pred             hHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCC-CCHHHHHHHHHHhhcccCCCchHHHHHhh
Q 047029          324 TLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSY-LTPGGFKILAFNYLKIKSHSMFDEIEELI  402 (455)
Q Consensus       324 ~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~-p~~~~~~~L~~~~l~~~~~~l~~ei~~ll  402 (455)
                           +.   .+    +.+.-||+||..+...... .   .....+.++. .+.++-.+|+..+.......+.+...+++
T Consensus       251 -----~~---~~----~~~~~ilvTtR~~~~~~~~-~---~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~~~~~~~~i~  314 (1249)
T 3sfz_A          251 -----LK---AF----DNQCQILLTTRDKSVTDSV-M---GPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSII  314 (1249)
T ss_dssp             -----HT---TT----CSSCEEEEEESSTTTTTTC-C---SCBCCEECCSSCCHHHHHHHHHHHHTSCSTTCCTHHHHHH
T ss_pred             -----HH---hh----cCCCEEEEEcCCHHHHHhh-c---CCceEEEecCCCCHHHHHHHHHHhhCCChhhCcHHHHHHH
Confidence                 11   11    1234577788765432111 1   1234577775 88888888888877554433334445555


Q ss_pred             ccccCchh
Q 047029          403 KEVEVTPA  410 (455)
Q Consensus       403 ~~~~~tpa  410 (455)
                      +...-.|.
T Consensus       315 ~~~~glPL  322 (1249)
T 3sfz_A          315 KECKGSPL  322 (1249)
T ss_dssp             HHTTTCHH
T ss_pred             HHhCCCHH
Confidence            55444454

>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=97.68  E-value=0.00011  Score=73.83  Aligned_cols=69  Identities=16%  Similarity=0.212  Sum_probs=47.3

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC---------------------ChHHHHHHHH---h
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR---------------------SNSDLRRLLV---S  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~---------------------~~~~l~~ll~---~  289 (455)
                      |++..+-++|+||||+|||+|+..+|...   +..+..++.....                     +..++..++.   .
T Consensus        57 Gl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~  136 (349)
T 2zr9_A           57 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVR  136 (349)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHh
Confidence            56667779999999999999999998765   5566666543311                     1122222222   2


Q ss_pred             hCCceEEEEecccchh
Q 047029          290 TGNRSILVIEDIDCSI  305 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~  305 (455)
                      ...+.+||||++..+.
T Consensus       137 ~~~~~lIVIDsl~~l~  152 (349)
T 2zr9_A          137 SGALDIIVIDSVAALV  152 (349)
T ss_dssp             TTCCSEEEEECGGGCC
T ss_pred             cCCCCEEEEcChHhhc
Confidence            2458999999999886

>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=97.68  E-value=7.8e-05  Score=73.80  Aligned_cols=40  Identities=15%  Similarity=0.196  Sum_probs=32.2

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---------CCcEEEEeccc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---------KFDIYDMELAS  276 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---------~~~v~~l~~~~  276 (455)
                      |++...-++|+||||+|||+++..+|...         +..++.++...
T Consensus       103 Gl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~  151 (324)
T 2z43_A          103 GIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEG  151 (324)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             CCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            56767789999999999999999999875         45666666543

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.67  E-value=2.2e-05  Score=70.56  Aligned_cols=33  Identities=30%  Similarity=0.395  Sum_probs=29.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      ++.++|.|||||||||+++++|..+++.+++.+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~d   37 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDSD   37 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            468999999999999999999999999988654

>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=97.65  E-value=0.00014  Score=73.06  Aligned_cols=70  Identities=14%  Similarity=0.218  Sum_probs=49.7

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC---------------------ChHHHHHHHH---h
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR---------------------SNSDLRRLLV---S  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~---------------------~~~~l~~ll~---~  289 (455)
                      |++..+.++|+||||+|||+|+..+|..+   +..+..++.....                     +...+..++.   .
T Consensus        59 Gl~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~  138 (356)
T 1u94_A           59 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR  138 (356)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHh
Confidence            57777789999999999999999998765   5677777763211                     1123333332   2


Q ss_pred             hCCceEEEEecccchhh
Q 047029          290 TGNRSILVIEDIDCSIE  306 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~~  306 (455)
                      ...+.+||||.+..+..
T Consensus       139 ~~~~~lVVIDsl~~l~~  155 (356)
T 1u94_A          139 SGAVDVIVVDSVAALTP  155 (356)
T ss_dssp             HTCCSEEEEECGGGCCC
T ss_pred             ccCCCEEEEcCHHHhcc
Confidence            35688999999998763

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.64  E-value=0.00012  Score=87.44  Aligned_cols=71  Identities=15%  Similarity=0.229  Sum_probs=53.5

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCCh------------------------HHHHHHHHh
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSN------------------------SDLRRLLVS  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~------------------------~~l~~ll~~  289 (455)
                      |++..+.++|+||||||||+|+.+++.+.   |.....+++......                        ..+.+.+..
T Consensus      1077 gi~~g~~vll~G~~GtGKT~la~~~~~ea~k~Ge~~~Fit~ee~~~~L~a~~~G~dl~~l~~~~pd~~e~~~~i~~~l~~ 1156 (2050)
T 3cmu_A         1077 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR 1156 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcCCCcEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEccccHHHHHHHHcCCChhHheeecCcchHHHHHHHHHHHH
Confidence            57778899999999999999999998765   777777776653111                        123334455


Q ss_pred             hCCceEEEEecccchhhh
Q 047029          290 TGNRSILVIEDIDCSIEL  307 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~~~  307 (455)
                      ...+.+|+||++..+.+.
T Consensus      1157 ~~~~dlvVIDsl~~L~~~ 1174 (2050)
T 3cmu_A         1157 SGAVDVIVVDSVAALTPK 1174 (2050)
T ss_dssp             HTCCSEEEESCGGGCCCH
T ss_pred             hCCCCEEEECCccccccc
Confidence            677999999999998553

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=97.64  E-value=0.00023  Score=73.82  Aligned_cols=61  Identities=26%  Similarity=0.287  Sum_probs=38.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CC-cEEEEec
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KF-DIYDMEL  274 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~-~v~~l~~  274 (455)
                      ..|.+|+.|  .+++++.+...+ .++...          ...+++.||||||||+++.+++..+   +. .++.+..
T Consensus        18 ~~p~~~~~L--n~~Q~~av~~~~-~~i~~~----------~~~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~a~   82 (459)
T 3upu_A           18 GSHMTFDDL--TEGQKNAFNIVM-KAIKEK----------KHHVTINGPAGTGATTLTKFIIEALISTGETGIILAAP   82 (459)
T ss_dssp             ---CCSSCC--CHHHHHHHHHHH-HHHHSS----------SCEEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEEES
T ss_pred             cCCCccccC--CHHHHHHHHHHH-HHHhcC----------CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEecC
Confidence            345677775  455555554433 333321          2389999999999999999999887   33 4554433

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.62  E-value=3e-05  Score=70.93  Aligned_cols=33  Identities=30%  Similarity=0.390  Sum_probs=29.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      .+.++|.||||+||||+++++|+.+++.+++.+
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~d   57 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKLNVPFIDLD   57 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHTCCEEEHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcch
Confidence            557999999999999999999999999887654

>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=97.62  E-value=0.00016  Score=69.75  Aligned_cols=29  Identities=28%  Similarity=0.239  Sum_probs=24.5

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |++...-++|+||||+|||+|+..+|..+
T Consensus        26 gl~~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           26 NMVAGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CccCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45556679999999999999999999754

>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=97.62  E-value=4.9e-05  Score=67.69  Aligned_cols=35  Identities=20%  Similarity=0.306  Sum_probs=30.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEecc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELA  275 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~  275 (455)
                      ++-++|.||||+||||+++++|..++.+++.++..
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l~~~~~~~~~D   37 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVD   37 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCCeEEeccc
Confidence            45789999999999999999999999888876543

>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=97.61  E-value=5.2e-05  Score=66.81  Aligned_cols=32  Identities=28%  Similarity=0.280  Sum_probs=28.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      -++|.||||+||||+++.+|+.+++.+++.+.
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~~~i~~d~   34 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKYPIIKGSS   34 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCCCEEECCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeecCcc
Confidence            57899999999999999999999998876653

>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=97.59  E-value=3.3e-05  Score=69.56  Aligned_cols=35  Identities=26%  Similarity=0.346  Sum_probs=29.8

Q ss_pred             CCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          238 KAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .+.+.-++|.||||+||||+++.++..++..+++.
T Consensus         2 ~~~~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~~   36 (193)
T 2rhm_A            2 MQTPALIIVTGHPATGKTTLSQALATGLRLPLLSK   36 (193)
T ss_dssp             CSCCEEEEEEESTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEecH
Confidence            34456799999999999999999999999887653

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=97.58  E-value=0.00019  Score=76.67  Aligned_cols=64  Identities=27%  Similarity=0.372  Sum_probs=42.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc----------CChHHHHHHHHhhC-----------CceEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL----------RSNSDLRRLLVSTG-----------NRSIL  296 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~----------~~~~~l~~ll~~~~-----------~~~IL  296 (455)
                      .+.+++.||||||||+++.+++..+   +..+..+-.+..          .....+.+++....           ...+|
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~ApT~~Aa~~L~e~~~~~a~Tih~ll~~~~~~~~~~~~~~~~~dvl  283 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGKAARRLGEVTGRTASTVHRLLGYGPQGFRHNHLEPAPYDLL  283 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHHHHHHHHHHHTSCEEEHHHHTTEETTEESCSSSSCCSCSEE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecCcHHHHHHhHhhhcccHHHHHHHHcCCcchhhhhhcccccCCEE
Confidence            4578999999999999999999866   666665533321          01122333332111           34799


Q ss_pred             EEecccch
Q 047029          297 VIEDIDCS  304 (455)
Q Consensus       297 ~iDEiD~l  304 (455)
                      +|||+..+
T Consensus       284 IIDEasml  291 (574)
T 3e1s_A          284 IVDEVSMM  291 (574)
T ss_dssp             EECCGGGC
T ss_pred             EEcCccCC
Confidence            99999865

>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=97.54  E-value=0.00027  Score=71.35  Aligned_cols=69  Identities=16%  Similarity=0.225  Sum_probs=48.2

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC---------------------ChHHHHHHHHh---
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR---------------------SNSDLRRLLVS---  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~---------------------~~~~l~~ll~~---  289 (455)
                      |++..+.++|+||||+|||+|+..+|...   +..+..++.....                     +...+...+..   
T Consensus        70 Gl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~  149 (366)
T 1xp8_A           70 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVR  149 (366)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHh
Confidence            56667789999999999999999998765   5667766654311                     11223333322   


Q ss_pred             hCCceEEEEecccchh
Q 047029          290 TGNRSILVIEDIDCSI  305 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~  305 (455)
                      .....+||||.+..+.
T Consensus       150 ~~~~~lVVIDsl~~l~  165 (366)
T 1xp8_A          150 SGAIDVVVVDSVAALT  165 (366)
T ss_dssp             TTCCSEEEEECTTTCC
T ss_pred             cCCCCEEEEeChHHhc
Confidence            2457899999999885

>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=97.53  E-value=0.00029  Score=70.33  Aligned_cols=40  Identities=18%  Similarity=0.061  Sum_probs=31.5

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---------CCcEEEEeccc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---------KFDIYDMELAS  276 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---------~~~v~~l~~~~  276 (455)
                      |++...-++|+||||+|||+++..+|...         +..++.++...
T Consensus       118 Gl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A          118 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            56666779999999999999999999862         45666666543

>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=97.53  E-value=0.00027  Score=70.82  Aligned_cols=29  Identities=24%  Similarity=0.336  Sum_probs=26.1

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |++...-+.|+||||+|||+|+..+|...
T Consensus       127 gi~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          127 GIETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            66667779999999999999999999887

>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=97.51  E-value=0.0002  Score=66.12  Aligned_cols=29  Identities=24%  Similarity=0.336  Sum_probs=25.2

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |++...-+.|.||+|+|||||++.++..+
T Consensus        21 gi~~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           21 GIETQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            56666679999999999999999999854

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.49  E-value=6.6e-05  Score=68.28  Aligned_cols=63  Identities=13%  Similarity=0.144  Sum_probs=37.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc--c------cCC----------hHHHHHHHHhhC-CceEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA--S------LRS----------NSDLRRLLVSTG-NRSILVIE  299 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~--~------~~~----------~~~l~~ll~~~~-~~~IL~iD  299 (455)
                      .-++++||||+|||+++..++..+   +..++.+...  .      +.+          ...+..++.... ...+|+||
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~~~~~~~~~~~~~~~dvviID   83 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVIERPEEMRKYIEEDTRGVFID   83 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC-----CCCEECC----CEECEEESSGGGGGGGCCTTEEEEEEC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeeccccccCcccEEecCCCceeeEEECCHHHHHHHhcCCCCEEEEE
Confidence            357899999999999997776654   5554443211  0      000          011222333332 46899999


Q ss_pred             cccch
Q 047029          300 DIDCS  304 (455)
Q Consensus       300 EiD~l  304 (455)
                      |+..+
T Consensus        84 E~Q~~   88 (184)
T 2orw_A           84 EVQFF   88 (184)
T ss_dssp             CGGGS
T ss_pred             CcccC
Confidence            99875

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.47  E-value=6e-05  Score=66.67  Aligned_cols=32  Identities=34%  Similarity=0.530  Sum_probs=29.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      ..++|.|+|||||||+++.+|..+|+++++.+
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg~~~id~D   39 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALKLEVLDTD   39 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            47999999999999999999999999988654

>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=97.45  E-value=6e-05  Score=67.47  Aligned_cols=32  Identities=28%  Similarity=0.431  Sum_probs=28.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      ++.++|.||||+||||+++++|..+++.+++.
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~   42 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSGLKYINV   42 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhCCeEEEH
Confidence            45799999999999999999999999887654

>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=97.45  E-value=6.3e-05  Score=67.50  Aligned_cols=32  Identities=31%  Similarity=0.497  Sum_probs=28.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      ..++|.|+||+||||+++.+|..+|+++++.+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg~~~id~D   34 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKALGVGLLDTD   34 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCCCEEeCc
Confidence            35899999999999999999999999987654

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.44  E-value=6.2e-05  Score=67.12  Aligned_cols=30  Identities=33%  Similarity=0.455  Sum_probs=27.4

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .++|.||||+||||+++++|+.+++.+++.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~~~~d~   35 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDLVFLDS   35 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            589999999999999999999999887754

>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=97.43  E-value=7.1e-05  Score=67.59  Aligned_cols=33  Identities=30%  Similarity=0.459  Sum_probs=28.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH-cCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY-LKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~-l~~~v~~l~  273 (455)
                      +..++|.|+|||||||+++.+|.. +|+++++.+
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~l~g~~~id~d   43 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAELDGFQHLEVG   43 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHSTTEEEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCCEEeeHH
Confidence            456999999999999999999999 787776554

>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=97.42  E-value=0.00048  Score=68.02  Aligned_cols=69  Identities=16%  Similarity=0.125  Sum_probs=44.4

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc-----CCcEEEEecccc---------------------CChHHH-HHHHH-
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELASL---------------------RSNSDL-RRLLV-  288 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~~~---------------------~~~~~l-~~ll~-  288 (455)
                      |++.. -++++||||+|||+|+..++...     +..+..++...-                     .+..++ ..+.. 
T Consensus        25 Gl~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~ra~~lGvd~d~llv~~~~~~E~~~l~i~~~  103 (333)
T 3io5_A           25 GMQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAYLRSMGVDPERVIHTPVQSLEQLRIDMVNQ  103 (333)
T ss_dssp             CBCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHHHHHTTCCGGGEEEEECSBHHHHHHHHHHH
T ss_pred             CCcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHHHHHhCCCHHHeEEEcCCCHHHHHHHHHHH
Confidence            45555 58999999999999977766543     455666665321                     011222 22221 


Q ss_pred             ----hhCCceEEEEecccchhh
Q 047029          289 ----STGNRSILVIEDIDCSIE  306 (455)
Q Consensus       289 ----~~~~~~IL~iDEiD~l~~  306 (455)
                          ....+.+|+||-|..+.+
T Consensus       104 l~~i~~~~~~lvVIDSI~aL~~  125 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGNLAS  125 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTTCBC
T ss_pred             HHHhhccCceEEEEeccccccc
Confidence                224689999999998863

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.41  E-value=0.00011  Score=65.14  Aligned_cols=31  Identities=42%  Similarity=0.745  Sum_probs=27.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      +..+.|.||||+||||+++.+|+.++..+++
T Consensus         4 ~~~i~l~G~~GsGKSTl~~~La~~l~~~~id   34 (173)
T 1kag_A            4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYD   34 (173)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHTTCEEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhCCCEEe
Confidence            3468999999999999999999999986654

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.40  E-value=0.00032  Score=65.92  Aligned_cols=61  Identities=18%  Similarity=0.283  Sum_probs=42.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc---------C-----------------ChHHHHHHHHhhCC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL---------R-----------------SNSDLRRLLVSTGN  292 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~---------~-----------------~~~~l~~ll~~~~~  292 (455)
                      -.+++.|+||+|||+++-++|..+   |.++..++...-         .                 .+..+..++.  .+
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q~~~~~~al~~gl~~~~~~~~~~~~~~~~e~~l~~~L~--~~   84 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGRAETEALLNGLPQQPLLRTEYRGMTLEEMDLDALLK--AA   84 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTCHHHHHHHTTSCBCCCEEEEETTEEEEECCHHHHHH--HC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCChhHHHHhcCccccCcceeecCCcccccccHHHHHh--cC
Confidence            469999999999999999999887   777765554320         0                 1123444443  35


Q ss_pred             ceEEEEecccch
Q 047029          293 RSILVIEDIDCS  304 (455)
Q Consensus       293 ~~IL~iDEiD~l  304 (455)
                      +.+++|||+...
T Consensus        85 pdlvIVDElG~~   96 (228)
T 2r8r_A           85 PSLVLVDELAHT   96 (228)
T ss_dssp             CSEEEESCTTCB
T ss_pred             CCEEEEeCCCCC
Confidence            789999998753

>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=97.39  E-value=0.00071  Score=62.15  Aligned_cols=110  Identities=8%  Similarity=0.110  Sum_probs=69.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc--C----------C--------------------hHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL--R----------S--------------------NSDLRR  285 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~--~----------~--------------------~~~l~~  285 (455)
                      +..+++|+++|.||||+|-++|-..   |..+..+....-  .          .                    ......
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~~  107 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMA  107 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHHH
Confidence            3468999999999999999999876   778777743221  0          0                    011111


Q ss_pred             HH----Hhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccc
Q 047029          286 LL----VST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPAL  359 (455)
Q Consensus       286 ll----~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~al  359 (455)
                      .+    ...  ....+|++||+......             .-.....+++.+..    .++..-||+|+|.+   +++|
T Consensus       108 ~l~~a~~~l~~~~yDlvILDEi~~al~~-------------g~l~~~ev~~~l~~----Rp~~~~vIlTGr~a---p~~l  167 (196)
T 1g5t_A          108 VWQHGKRMLADPLLDMVVLDELTYMVAY-------------DYLPLEEVISALNA----RPGHQTVIITGRGC---HRDI  167 (196)
T ss_dssp             HHHHHHHHTTCTTCSEEEEETHHHHHHT-------------TSSCHHHHHHHHHT----SCTTCEEEEECSSC---CHHH
T ss_pred             HHHHHHHHHhcCCCCEEEEeCCCccccC-------------CCCCHHHHHHHHHh----CcCCCEEEEECCCC---cHHH
Confidence            22    222  34689999999765431             11223446666543    34668899999985   5677


Q ss_pred             cCCCceeEEEEeC
Q 047029          360 LRPGRMDMHIHMS  372 (455)
Q Consensus       360 lRpGR~d~~I~~~  372 (455)
                      +.  .-|.+-+|.
T Consensus       168 ~e--~AD~VTem~  178 (196)
T 1g5t_A          168 LD--LADTVSELR  178 (196)
T ss_dssp             HH--HCSEEEECC
T ss_pred             HH--hCcceeeec
Confidence            76  667666664

>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=97.35  E-value=0.0004  Score=68.32  Aligned_cols=28  Identities=18%  Similarity=0.177  Sum_probs=24.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHH
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      |++...-++|+||||+|||+++..+|..
T Consensus        94 Gl~~g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           94 GLESQSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            5666677999999999999999999875

>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=97.34  E-value=9.9e-05  Score=66.17  Aligned_cols=33  Identities=18%  Similarity=0.271  Sum_probs=29.1

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .++-++|.|+||+||||+++.++..++..+++.
T Consensus         5 ~~~~I~l~G~~GsGKsT~~~~L~~~l~~~~i~~   37 (194)
T 1qf9_A            5 KPNVVFVLGGPGSGKGTQCANIVRDFGWVHLSA   37 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHhCCeEeeH
Confidence            356799999999999999999999999877765

>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=97.32  E-value=0.00013  Score=66.58  Aligned_cols=32  Identities=31%  Similarity=0.494  Sum_probs=28.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +..++|.||||+||||+++.+|..+++.+++.
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            34689999999999999999999999887765

>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=97.32  E-value=0.0001  Score=65.12  Aligned_cols=32  Identities=19%  Similarity=0.413  Sum_probs=28.2

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +.++|.|+||+||||+++.+|..+++++++.+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg~~~id~d   34 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALGYEFVDTD   34 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCcEEccc
Confidence            36899999999999999999999998877643

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.29  E-value=0.00012  Score=65.75  Aligned_cols=32  Identities=19%  Similarity=0.316  Sum_probs=28.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +.-++|.|+||+||||+++.++..++..+++.
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   34 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYGYTHLSA   34 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            45689999999999999999999999877654

>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=97.28  E-value=0.00013  Score=64.01  Aligned_cols=29  Identities=28%  Similarity=0.371  Sum_probs=26.0

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      -++|.||||+||||+++.+ ..+|+.++.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~g~~~i~~   31 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KERGAKVIVM   31 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHTTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCcEEEH
Confidence            5889999999999999999 8899887754

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.28  E-value=0.00037  Score=67.82  Aligned_cols=35  Identities=29%  Similarity=0.415  Sum_probs=28.3

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      .+..++|.||||+||||++++++..++...+.++.
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~   66 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDN   66 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEec
Confidence            35679999999999999999999998544555554

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.27  E-value=0.00015  Score=69.18  Aligned_cols=33  Identities=21%  Similarity=0.436  Sum_probs=29.4

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEecc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMELA  275 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~  275 (455)
                      -++|.||||+||||+++++|+.++..++..|..
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~~~~i~~D~~   35 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETGWPVVALDRV   35 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCCEEECCSG
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCCCeEEeccHH
Confidence            478999999999999999999999988877643

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.26  E-value=0.00014  Score=65.55  Aligned_cols=33  Identities=15%  Similarity=0.297  Sum_probs=29.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +.-++|.||||+||||+++.+|+.++..+++.+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~d   41 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTG   41 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcHH
Confidence            457999999999999999999999998877653

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.24  E-value=0.00017  Score=65.78  Aligned_cols=32  Identities=25%  Similarity=0.351  Sum_probs=28.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +.-++|.||||+||||+++.+++.+|..+++.
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg~~~i~~   49 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACGYPFIEG   49 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHTCCEEEG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCEEEeC
Confidence            45799999999999999999999998777654

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.24  E-value=0.00015  Score=63.75  Aligned_cols=31  Identities=26%  Similarity=0.403  Sum_probs=27.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      .++|.|+||+||||+++.+++.+++.+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~d   32 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLNIPFYDVD   32 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHTCCEEEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEECc
Confidence            4789999999999999999999998887644

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.23  E-value=0.00014  Score=67.35  Aligned_cols=31  Identities=19%  Similarity=0.377  Sum_probs=27.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      ..++|.||||+||||+++.+|..+++.+++.
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            4689999999999999999999999887765

>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=97.22  E-value=0.00016  Score=65.02  Aligned_cols=36  Identities=31%  Similarity=0.366  Sum_probs=28.8

Q ss_pred             CCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          238 KAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +..+.-+.|.||||+||||+++++|+.++...+.++
T Consensus         6 i~~g~~i~l~G~~GsGKSTl~~~La~~~~~g~i~i~   41 (191)
T 1zp6_A            6 DLGGNILLLSGHPGSGKSTIAEALANLPGVPKVHFH   41 (191)
T ss_dssp             CCTTEEEEEEECTTSCHHHHHHHHHTCSSSCEEEEC
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHhccCCCeEEEc
Confidence            344567899999999999999999998766655554

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.21  E-value=0.00016  Score=65.40  Aligned_cols=32  Identities=19%  Similarity=0.349  Sum_probs=28.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +.-++|.||||+||||+++.+|..+++.+++.
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~   43 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYGFTHLST   43 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            45799999999999999999999999777654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.21  E-value=0.00013  Score=65.40  Aligned_cols=31  Identities=29%  Similarity=0.602  Sum_probs=27.2

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      ..++|.||||+||||+++.+|+.+++.+++.
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l~~~~i~~   35 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQELGFKKLST   35 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTCEEECH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEecH
Confidence            3589999999999999999999999876644

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.20  E-value=0.00016  Score=67.31  Aligned_cols=32  Identities=16%  Similarity=0.373  Sum_probs=28.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +.-++|.||||+||||+++.+|..++..+++.
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   38 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHFELKHLSS   38 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHSSSEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCeEEec
Confidence            45799999999999999999999999877654

>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=97.19  E-value=0.00019  Score=66.44  Aligned_cols=32  Identities=22%  Similarity=0.402  Sum_probs=28.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +..++|.||||+||||+++.+|+.++..+++.
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   35 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFHAAHLAT   35 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeh
Confidence            34689999999999999999999999877654

>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=97.18  E-value=0.00018  Score=66.24  Aligned_cols=30  Identities=20%  Similarity=0.309  Sum_probs=27.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .++|.||||+||||+++.+|+.++..+++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKYGIPHIST   31 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            378999999999999999999999888765

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.18  E-value=0.00045  Score=65.63  Aligned_cols=39  Identities=21%  Similarity=0.211  Sum_probs=30.9

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL  277 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~  277 (455)
                      ..+..++|.||||+||||+++.++..++...+.++...+
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~l~~~~~~~~~D~~   68 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSF   68 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHHTTTCCEEECGGGG
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHhcCCCcEEEecHHH
Confidence            335679999999999999999999999865555555443

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=97.18  E-value=0.0006  Score=80.62  Aligned_cols=70  Identities=14%  Similarity=0.225  Sum_probs=52.2

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC---------------------ChHHHHHHHHh---
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR---------------------SNSDLRRLLVS---  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~---------------------~~~~l~~ll~~---  289 (455)
                      |++..+.++|+||||||||+|+.++|...   |..+++++.....                     ....+.+++..   
T Consensus        30 Gi~~G~i~lI~G~pGsGKT~LAlqla~~~~~~G~~vlYI~te~~~~~l~~~~lg~dl~~i~i~~p~t~e~l~~ll~~L~~  109 (1706)
T 3cmw_A           30 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR  109 (1706)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcCCCeEEEEECCCCCCHHHHHHHHHHHHhhCCCceEEEEecCccHHHHHHhhccCccceeeeccCcHHHHHHHHHHHHh
Confidence            67888899999999999999999998753   6777777765431                     12233344333   


Q ss_pred             hCCceEEEEecccchhh
Q 047029          290 TGNRSILVIEDIDCSIE  306 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~~  306 (455)
                      ..++.+|+||++..+..
T Consensus       110 ~~~~~LVVIDSLt~L~~  126 (1706)
T 3cmw_A          110 SGAVDVIVVDSVAALTP  126 (1706)
T ss_dssp             HTCCSEEEESCSTTCCC
T ss_pred             ccCCCEEEEcchhhhcc
Confidence            35689999999998865

>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=97.17  E-value=0.00023  Score=63.64  Aligned_cols=25  Identities=20%  Similarity=0.395  Sum_probs=23.4

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .-++|.||||+||||+++.+|..++
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4689999999999999999999987

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.17  E-value=0.00016  Score=64.06  Aligned_cols=30  Identities=30%  Similarity=0.331  Sum_probs=24.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHH-HcCCcEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMAN-YLKFDIY  270 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~-~l~~~v~  270 (455)
                      |.-++|.||||+||||+++.+++ .++..++
T Consensus         2 ~~~I~i~G~~GsGKST~a~~L~~~~~~~~~i   32 (181)
T 1ly1_A            2 KKIILTIGCPGSGKSTWAREFIAKNPGFYNI   32 (181)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHSTTEEEE
T ss_pred             CeEEEEecCCCCCHHHHHHHHHhhcCCcEEe
Confidence            45689999999999999999999 4654443

>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=97.16  E-value=0.00098  Score=67.98  Aligned_cols=27  Identities=33%  Similarity=0.270  Sum_probs=23.1

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHH
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      |++...-++|+||||+|||+|+..+|-
T Consensus       174 GI~~Gei~~I~G~sGsGKTTLl~~la~  200 (400)
T 3lda_A          174 GVETGSITELFGEFRTGKSQLCHTLAV  200 (400)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcCCCcEEEEEcCCCCChHHHHHHHHH
Confidence            566667799999999999999997763

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.15  E-value=0.0002  Score=65.92  Aligned_cols=30  Identities=20%  Similarity=0.362  Sum_probs=27.0

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .++|.||||+||||+++.+|..++..+++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYEIPHIST   31 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEeeH
Confidence            378999999999999999999999887765

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.15  E-value=0.00023  Score=63.48  Aligned_cols=30  Identities=20%  Similarity=0.226  Sum_probs=23.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      +.-++|.|+||+||||+++.+++.++.+++
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i   34 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLPGSFV   34 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHSTTCEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            346899999999999999999999998876

>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=97.14  E-value=0.00038  Score=62.13  Aligned_cols=34  Identities=26%  Similarity=0.440  Sum_probs=29.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      +.-+.|.|++|+||||+++.++..+   |++++.++.
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d~   41 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDG   41 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEECC
Confidence            4468899999999999999999998   888887763

>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=97.13  E-value=0.00027  Score=62.75  Aligned_cols=31  Identities=32%  Similarity=0.536  Sum_probs=26.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      ...+.|.||||+||||+++.+++.+|..+++
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~g~~~i~   38 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLD   38 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhhCcEEEe
Confidence            3468999999999999999999999866554

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.12  E-value=0.00025  Score=64.58  Aligned_cols=33  Identities=18%  Similarity=0.286  Sum_probs=28.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +.-++|.||||+||||+++.+++.+++.+++.+
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~~d   47 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKDYSFVHLSAG   47 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHSSCEEEEHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeHH
Confidence            346899999999999999999999998776654

>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=97.12  E-value=0.00026  Score=66.36  Aligned_cols=31  Identities=26%  Similarity=0.393  Sum_probs=27.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      ..++|.|+||+||||+++.||+.+++.++..
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   47 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   47 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCceecH
Confidence            4699999999999999999999999877654

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=97.11  E-value=0.0017  Score=60.48  Aligned_cols=38  Identities=26%  Similarity=0.171  Sum_probs=28.7

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHH----cCCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANY----LKFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~----l~~~v~~l~~  274 (455)
                      |+++..-++++|+||+|||+++..+|..    .+..++.+.+
T Consensus        26 Gl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~   67 (251)
T 2zts_A           26 GFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTL   67 (251)
T ss_dssp             SEETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecc
Confidence            5666777999999999999999877643    2556665543

>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=97.10  E-value=0.014  Score=61.71  Aligned_cols=158  Identities=15%  Similarity=0.104  Sum_probs=86.9

Q ss_pred             cCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHH----HcC--Cc-EEEEeccccC-----
Q 047029          211 MDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMAN----YLK--FD-IYDMELASLR-----  278 (455)
Q Consensus       211 g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~----~l~--~~-v~~l~~~~~~-----  278 (455)
                      |-+..+++|.+.|..    .      +....+.+.++|++|+|||+||+.+++    ...  ++ .+.++.+...     
T Consensus       132 GR~~~~~~l~~~L~~----~------~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~  201 (549)
T 2a5y_B          132 IREYHVDRVIKKLDE----M------CDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTF  201 (549)
T ss_dssp             CCHHHHHHHHHHHHH----H------TTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHH
T ss_pred             CchHHHHHHHHHHhc----c------cCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHH
Confidence            888888888777632    1      112246789999999999999999997    232  22 1223333210     


Q ss_pred             -------------------------ChHHHHHHHHhh--CC-ceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhh
Q 047029          279 -------------------------SNSDLRRLLVST--GN-RSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLN  330 (455)
Q Consensus       279 -------------------------~~~~l~~ll~~~--~~-~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~  330 (455)
                                               +...+...+...  .+ +.+|||||++....                  + .+  
T Consensus       202 ~~~~~il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~------------------~-~~--  260 (549)
T 2a5y_B          202 DLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEET------------------I-RW--  260 (549)
T ss_dssp             HHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHH------------------H-HH--
T ss_pred             HHHHHHHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchh------------------h-cc--
Confidence                                     001122333221  33 78999999985311                  1 11  


Q ss_pred             hhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCC-CchH-HHHHhhccccCc
Q 047029          331 FVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSH-SMFD-EIEELIKEVEVT  408 (455)
Q Consensus       331 ~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~-~l~~-ei~~ll~~~~~t  408 (455)
                        .+.     .+..||+||......   .. .+-.+..++++..+.++-.+|+..+...... .... ...++++...-.
T Consensus       261 --~~~-----~gs~ilvTTR~~~v~---~~-~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~Gl  329 (549)
T 2a5y_B          261 --AQE-----LRLRCLVTTRDVEIS---NA-ASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGN  329 (549)
T ss_dssp             --HHH-----TTCEEEEEESBGGGG---GG-CCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTC
T ss_pred             --ccc-----CCCEEEEEcCCHHHH---HH-cCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCC
Confidence              111     223466777653221   11 1123456899999999999999988533221 2222 234444444445


Q ss_pred             hh
Q 047029          409 PA  410 (455)
Q Consensus       409 pa  410 (455)
                      |.
T Consensus       330 PL  331 (549)
T 2a5y_B          330 PA  331 (549)
T ss_dssp             HH
T ss_pred             hH
Confidence            54

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.08  E-value=0.00041  Score=63.32  Aligned_cols=30  Identities=20%  Similarity=0.424  Sum_probs=26.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      +.-+.|.||+|+||||+++++++.+|..++
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~~~g~~~i   58 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVADETGLEFA   58 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHCCEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCCeEE
Confidence            456899999999999999999999976544

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.06  E-value=0.00046  Score=61.86  Aligned_cols=32  Identities=19%  Similarity=0.225  Sum_probs=28.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      -+.|.|+||+||||+++.+++.+   |++++..+.
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~d~   36 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYRE   36 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            37899999999999999999998   898887763

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.05  E-value=0.00019  Score=66.60  Aligned_cols=31  Identities=13%  Similarity=0.263  Sum_probs=27.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      +..++|.||||+||||+++.+|+.++..+++
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~   35 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQLAHIS   35 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            4579999999999999999999999976554

>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=97.01  E-value=0.00034  Score=66.16  Aligned_cols=33  Identities=18%  Similarity=0.322  Sum_probs=28.9

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .+.-++|.||||+||||+++.+++.++..++..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~   60 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSHCYCHLST   60 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            356799999999999999999999998877755

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.00  E-value=0.00049  Score=64.32  Aligned_cols=31  Identities=19%  Similarity=0.421  Sum_probs=27.2

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      .++-++|.||||+||+|.|+.||+.+|+..+
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~g~~hI   58 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKFHFNHL   58 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHHCCEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHCCceE
Confidence            3567899999999999999999999987654

>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=96.99  E-value=0.00032  Score=64.71  Aligned_cols=30  Identities=17%  Similarity=0.233  Sum_probs=27.0

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .++|.||||+||||+++.+|..+++.++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g~~~i~~   31 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            378999999999999999999999887665

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.98  E-value=0.00046  Score=68.33  Aligned_cols=34  Identities=26%  Similarity=0.506  Sum_probs=30.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      ++.++|.||+|+|||+++.++|+.++..+++.|.
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l~~~iis~Ds   38 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADALPCELISVDS   38 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEEECT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCcEEeccc
Confidence            4579999999999999999999999988888764

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.95  E-value=0.00023  Score=71.26  Aligned_cols=49  Identities=20%  Similarity=0.405  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          213 PVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       213 ~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      +.+.+.+++.+...+..       |  ....++|.||||+|||++++++|+.++++++
T Consensus         5 ~~L~~~il~~l~~~i~~-------g--~~~~i~l~G~~G~GKTTl~~~la~~l~~~f~   53 (359)
T 2ga8_A            5 HKLADDVLQLLDNRIED-------N--YRVCVILVGSPGSGKSTIAEELCQIINEKYH   53 (359)
T ss_dssp             HHHHHHHHHHHHHTTTT-------C--SCEEEEEECCTTSSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcc-------C--CeeEEEEECCCCCcHHHHHHHHHHHhCCCee
Confidence            45666666666543322       1  1246999999999999999999999987773

>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=96.93  E-value=0.00056  Score=64.50  Aligned_cols=31  Identities=23%  Similarity=0.484  Sum_probs=26.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      +.-+.|.||||+||||+++.||+.+|...++
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg~~~~~   57 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFGLQHLS   57 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCCCEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEec
Confidence            4579999999999999999999999876543

>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=96.91  E-value=0.00065  Score=62.75  Aligned_cols=30  Identities=37%  Similarity=0.607  Sum_probs=26.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .-+.|.||+|+||||+++.+++.+|+++++
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g~~~~d   35 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQWHLLD   35 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            468999999999999999999999987765

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=96.90  E-value=0.0022  Score=60.11  Aligned_cols=62  Identities=13%  Similarity=0.215  Sum_probs=40.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccc-------c-------------CChHHHHHHHHhh---CCceEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELAS-------L-------------RSNSDLRRLLVST---GNRSIL  296 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~-------~-------------~~~~~l~~ll~~~---~~~~IL  296 (455)
                      -++++||||+||||++..++..+   +..++.+....       +             ....++.+.+...   ..+.+|
T Consensus        14 i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~~~~~dvV   93 (223)
T 2b8t_A           14 IEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKVI   93 (223)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHhcCCCccccccCCHHHHHHHHHHHhhCCCCCEE
Confidence            47888999999999998888776   55666553111       1             0112344433332   247899


Q ss_pred             EEecccch
Q 047029          297 VIEDIDCS  304 (455)
Q Consensus       297 ~iDEiD~l  304 (455)
                      +|||+..+
T Consensus        94 iIDEaQ~l  101 (223)
T 2b8t_A           94 GIDEVQFF  101 (223)
T ss_dssp             EECSGGGS
T ss_pred             EEecCccC
Confidence            99999865

>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=96.89  E-value=0.00065  Score=61.54  Aligned_cols=34  Identities=12%  Similarity=0.123  Sum_probs=29.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc-CCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL-KFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l-~~~v~~l~~  274 (455)
                      +.-+.|.||||+||||+++.+++.+ |++++.++.
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~~~   38 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESIPANTIKYLNF   38 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTSCGGGEEEEES
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHCCCceEEEec
Confidence            3468999999999999999999999 688877654

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.89  E-value=0.00062  Score=63.36  Aligned_cols=30  Identities=20%  Similarity=0.430  Sum_probs=26.4

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      -++|.||||+||||+++.+|..+++.++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg~~~i~~   31 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYSLAHIES   31 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEch
Confidence            378999999999999999999999776554

>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=96.88  E-value=0.00041  Score=63.12  Aligned_cols=31  Identities=26%  Similarity=0.283  Sum_probs=27.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      -+.|.||+|+||||+++.+|+ +|+.+++.+.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~g~~~i~~d~   33 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-LGAYVLDADK   33 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-TTCEEEEHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH-CCCEEEEccH
Confidence            478999999999999999999 8888776653

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.88  E-value=0.0017  Score=57.78  Aligned_cols=20  Identities=30%  Similarity=0.446  Sum_probs=17.5

Q ss_pred             CceeEEECCCCCChHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAA  260 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~a  260 (455)
                      ..-+.|.||+|+|||||+++
T Consensus         9 gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHH
Confidence            44589999999999999993

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.88  E-value=0.00061  Score=61.53  Aligned_cols=28  Identities=29%  Similarity=0.667  Sum_probs=25.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      -+.|.|+||+||||+++.+|+.++..++
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~~~~   29 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGYEIF   29 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCCEEE
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCCcEE
Confidence            4789999999999999999999998655

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=96.87  E-value=0.006  Score=69.00  Aligned_cols=54  Identities=19%  Similarity=0.145  Sum_probs=37.2

Q ss_pred             ccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc------CCcEEEEecc
Q 047029          210 AMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL------KFDIYDMELA  275 (455)
Q Consensus       210 ~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l------~~~v~~l~~~  275 (455)
                      +|-+...++|.+.+..    .        ...+-+.++||+|.|||+||+.+++..      ...++-++++
T Consensus       131 VGRe~eLeeL~elL~~----~--------d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs  190 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLE----L--------RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK  190 (1221)
T ss_dssp             CCCHHHHHHHHHHHHH----C--------CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECC
T ss_pred             CCcHHHHHHHHHHHhc----c--------CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeC
Confidence            6767777777666541    0        124678999999999999999998642      4445555544

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.86  E-value=0.00044  Score=61.80  Aligned_cols=24  Identities=33%  Similarity=0.534  Sum_probs=22.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      -++|.||||+||||+++.+++.++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999999886

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.85  E-value=0.0013  Score=59.59  Aligned_cols=31  Identities=26%  Similarity=0.424  Sum_probs=26.1

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCC--cEEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKF--DIYDM  272 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~--~v~~l  272 (455)
                      .-++|.||||+||||+++.+++.++.  +++..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~   37 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIELKRDVYLT   37 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTTTSCEEEE
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhhcCCEEEe
Confidence            46889999999999999999999876  35443

>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=96.84  E-value=0.00069  Score=62.70  Aligned_cols=29  Identities=28%  Similarity=0.442  Sum_probs=25.4

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .++|.||||+||+|.|+.||+.+|+..+.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g~~~is   30 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKGFVHIS   30 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCeEEc
Confidence            37889999999999999999999876643

>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=96.84  E-value=0.001  Score=60.53  Aligned_cols=33  Identities=27%  Similarity=0.318  Sum_probs=26.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      +.-+.|.||+|+||||+++++|..+   |...+.++
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d   60 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILD   60 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEec
Confidence            4568899999999999999999998   54434444

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.82  E-value=0.00058  Score=65.19  Aligned_cols=33  Identities=30%  Similarity=0.518  Sum_probs=29.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      ...+.|.||+|+||||+++.+|+.+++++++.+
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg~~~~d~d   80 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLGYTFFDCD   80 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCcEEeCc
Confidence            457999999999999999999999999888754

>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=96.79  E-value=0.0062  Score=62.62  Aligned_cols=61  Identities=13%  Similarity=0.183  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHHhHH-HHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          213 PVLKQALIDDLDRFVKRRE-FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       213 ~~~k~~l~~~l~~~l~~~~-~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      +.+.+.+.+.+...+.... ..... ...++-+++.||+|+||||++..+|..+   |..+..+++
T Consensus        69 ~~v~~~v~~eL~~~L~~~~~~~~~~-~~~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~  133 (433)
T 3kl4_A           69 EWFISIVYDELSKLFGGDKEPNVNP-TKLPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAA  133 (433)
T ss_dssp             HHHHHHHHHHHHHHHCSSSCCCCSC-CSSSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             HHHHHHHHHHHHHhcCccccccccc-cCCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Confidence            3445555565555544311 11110 1235678999999999999999999887   566655543

>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=96.79  E-value=0.001  Score=60.35  Aligned_cols=31  Identities=26%  Similarity=0.272  Sum_probs=28.4

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      -+.|.||+|+||||+++.+|..+|+++++.+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~d~d   34 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYLSSG   34 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceeccc
Confidence            6889999999999999999999999888754

>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=96.78  E-value=0.00054  Score=62.51  Aligned_cols=30  Identities=23%  Similarity=0.346  Sum_probs=26.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      .+.|.||+|+||||+++.+|+ +|..+++.+
T Consensus         4 ~i~l~G~~GsGKST~~~~La~-lg~~~id~d   33 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD-LGVPLVDAD   33 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT-TTCCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcccchH
Confidence            578999999999999999998 888887654

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=96.77  E-value=0.0067  Score=56.97  Aligned_cols=31  Identities=23%  Similarity=0.179  Sum_probs=26.4

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      .+++.||+|+|||.++.+++..++..++.+-
T Consensus       110 ~~ll~~~tG~GKT~~a~~~~~~~~~~~liv~  140 (237)
T 2fz4_A          110 RGCIVLPTGSGKTHVAMAAINELSTPTLIVV  140 (237)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEEE
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHcCCCEEEEe
Confidence            5899999999999999999998876666554

>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=96.77  E-value=0.00096  Score=63.00  Aligned_cols=32  Identities=34%  Similarity=0.376  Sum_probs=28.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      +..+.|.||||+||||+++.+|+.+++.+++.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg~~~~d~   40 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALGARYLDT   40 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCcccC
Confidence            44689999999999999999999999887654

>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=96.77  E-value=0.0061  Score=62.98  Aligned_cols=85  Identities=15%  Similarity=0.187  Sum_probs=61.5

Q ss_pred             ceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCC-------------CCCCCccc
Q 047029          293 RSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY-------------KERLDPAL  359 (455)
Q Consensus       293 ~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~-------------~~~Ld~al  359 (455)
                      |.|++|||+|.+.                ....+.|+..|+.-    +.. ++|++||.             ++.|+|.+
T Consensus       296 ~~VliIDEa~~l~----------------~~a~~aLlk~lEe~----~~~-~~il~tn~~~~~i~~~~~~~~~~~l~~~i  354 (456)
T 2c9o_A          296 PGVLFVDEVHMLD----------------IECFTYLHRALESS----IAP-IVIFASNRGNCVIRGTEDITSPHGIPLDL  354 (456)
T ss_dssp             ECEEEEESGGGCB----------------HHHHHHHHHHTTST----TCC-EEEEEECCSEEECBTTSSCEEETTCCHHH
T ss_pred             ceEEEEechhhcC----------------HHHHHHHHHHhhcc----CCC-EEEEecCCccccccccccccccccCChhH
Confidence            4799999999873                24567777777643    233 45555543             77899999


Q ss_pred             cCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHh
Q 047029          360 LRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEEL  401 (455)
Q Consensus       360 lRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~l  401 (455)
                      ++  ||.. +.+++++.++..++++..+...+..+.++...+
T Consensus       355 ~s--R~~~-~~~~~~~~~e~~~iL~~~~~~~~~~~~~~~~~~  393 (456)
T 2c9o_A          355 LD--RVMI-IRTMLYTPQEMKQIIKIRAQTEGINISEEALNH  393 (456)
T ss_dssp             HT--TEEE-EECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHH
T ss_pred             Hh--hcce-eeCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            99  9976 699999999999999988765554444444333

>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=96.76  E-value=0.00066  Score=62.12  Aligned_cols=32  Identities=22%  Similarity=0.265  Sum_probs=28.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      .-+.|.|++||||||+++.++..+|+++++.|
T Consensus        13 ~iIgltG~~GSGKSTva~~L~~~lg~~vid~D   44 (192)
T 2grj_A           13 MVIGVTGKIGTGKSTVCEILKNKYGAHVVNVD   44 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCEEEECc
Confidence            45889999999999999999999998887755

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.73  E-value=0.0022  Score=69.34  Aligned_cols=57  Identities=25%  Similarity=0.379  Sum_probs=37.7

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccc
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELAS  276 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~  276 (455)
                      .|-+-.+++.+++.+...+.    .           +.-.|++||||||||+++..+...+   +..+..+..+.
T Consensus       184 ~~~~~~LN~~Q~~AV~~al~----~-----------~~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~TN  243 (646)
T 4b3f_X          184 TFFNTCLDTSQKEAVLFALS----Q-----------KELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPSN  243 (646)
T ss_dssp             CCSSTTCCHHHHHHHHHHHH----C-----------SSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSH
T ss_pred             cccCCCCCHHHHHHHHHHhc----C-----------CCceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEcCch
Confidence            33333568888888877653    1           2257999999999997766665554   56665555443

>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=96.71  E-value=0.0019  Score=64.88  Aligned_cols=60  Identities=30%  Similarity=0.521  Sum_probs=38.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcC----CcEEEEecc-cc---------------CChHHHHHHHHhh--CCceEEEEec
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLK----FDIYDMELA-SL---------------RSNSDLRRLLVST--GNRSILVIED  300 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~----~~v~~l~~~-~~---------------~~~~~l~~ll~~~--~~~~IL~iDE  300 (455)
                      .+++.||+|+||||+++++++.+.    ..++.+.-. ..               .....+...+..+  .+|.||++||
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL~~~PdvillDE  204 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSALREDPDIILVGE  204 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHTTSCCSEEEESC
T ss_pred             EEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHhhhCcCEEecCC
Confidence            589999999999999999999873    333332210 00               0111233333332  4799999999


Q ss_pred             cc
Q 047029          301 ID  302 (455)
Q Consensus       301 iD  302 (455)
                      +-
T Consensus       205 p~  206 (356)
T 3jvv_A          205 MR  206 (356)
T ss_dssp             CC
T ss_pred             CC
Confidence            85

>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=96.66  E-value=0.00089  Score=60.51  Aligned_cols=32  Identities=22%  Similarity=0.407  Sum_probs=27.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +..+.|.|++|+||||+++.+|+. |+.+++.+
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~-g~~~id~d   39 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSW-GYPVLDLD   39 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT-TCCEEEHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHC-CCEEEccc
Confidence            346899999999999999999998 88887654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.66  E-value=0.00056  Score=62.38  Aligned_cols=28  Identities=25%  Similarity=0.326  Sum_probs=24.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFD  268 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~  268 (455)
                      +.-+.|.|+||+||||+++.+++.++..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~~   37 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKNN   37 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            4568999999999999999999987543

>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=96.65  E-value=0.0013  Score=62.69  Aligned_cols=32  Identities=28%  Similarity=0.417  Sum_probs=27.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH---cCCcEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY---LKFDIYDME  273 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~---l~~~v~~l~  273 (455)
                      .-++|.|+||+||||+++.++..   .|+.++.++
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~   39 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLG   39 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEEC
Confidence            46899999999999999999998   688777444

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=96.62  E-value=0.0037  Score=64.38  Aligned_cols=64  Identities=20%  Similarity=0.293  Sum_probs=44.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc------------------------C--Ch-HHHHHHHHhh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL------------------------R--SN-SDLRRLLVST  290 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~------------------------~--~~-~~l~~ll~~~  290 (455)
                      ++.+++.||||+||||++..+|..+   |..+..+++...                        .  +. .-+.+.+...
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D~~r~~a~~qL~~~~~~~gv~v~~~~~~~~dp~~i~~~~l~~~  178 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGDETRTKSPVDIVKEGMEKF  178 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCSCCCTTGGGSSHHHHHHSSCCEECCSSSCCSSSTTHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeccccCchHHHHHHHhhhccCcceEecCCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999999987   456665554311                        0  00 1234455555


Q ss_pred             CCceEEEEecccch
Q 047029          291 GNRSILVIEDIDCS  304 (455)
Q Consensus       291 ~~~~IL~iDEiD~l  304 (455)
                      ....+++||....+
T Consensus       179 ~~~D~vIIDT~G~~  192 (432)
T 2v3c_C          179 KKADVLIIDTAGRH  192 (432)
T ss_dssp             SSCSEEEEECCCSC
T ss_pred             hCCCEEEEcCCCCc
Confidence            56789999998754

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=96.59  E-value=0.013  Score=51.93  Aligned_cols=24  Identities=38%  Similarity=0.488  Sum_probs=21.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..+++.|++|+|||+|+.++.+.-
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            469999999999999999998743

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=96.58  E-value=0.0088  Score=54.77  Aligned_cols=63  Identities=17%  Similarity=0.250  Sum_probs=40.5

Q ss_pred             ceeEEECCCCCChH-HHHHHHHHHc--CCcEEEEecc-------ccCC----------hHHHHHHHHhhCCceEEEEecc
Q 047029          242 RGYLLYGPPGTGKS-SLIAAMANYL--KFDIYDMELA-------SLRS----------NSDLRRLLVSTGNRSILVIEDI  301 (455)
Q Consensus       242 rg~LL~GPpGTGKT-sla~alA~~l--~~~v~~l~~~-------~~~~----------~~~l~~ll~~~~~~~IL~iDEi  301 (455)
                      +-+++|||.|+||| .|++++.++.  +..++.+...       .+.+          .....+++....+-.+|+|||+
T Consensus        21 ~l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp~~D~R~~~~i~S~~g~~~~A~~~~~~~d~~~~~~~~DvIlIDEa  100 (195)
T 1w4r_A           21 QIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEALGVAVIGIDEG  100 (195)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEETTCCCGGGSCCHHHHHHSEEEEESSGGGGHHHHHTCSEEEESSG
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEccccCccchhhhhhccCCcccceecCCHHHHHHhccCCCEEEEEch
Confidence            45889999999999 9999998876  6677666532       0100          0011112222234579999999


Q ss_pred             cch
Q 047029          302 DCS  304 (455)
Q Consensus       302 D~l  304 (455)
                      ..+
T Consensus       101 QFf  103 (195)
T 1w4r_A          101 QFF  103 (195)
T ss_dssp             GGC
T ss_pred             hhh
Confidence            976

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.55  E-value=0.0018  Score=61.41  Aligned_cols=30  Identities=33%  Similarity=0.567  Sum_probs=27.0

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .-+.|.||+|+||||+++.+|+.+|+.+++
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La~~Lg~~~~d   57 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALAESLNWRLLD   57 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCCCcCC
Confidence            468899999999999999999999987765

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=96.55  E-value=0.0012  Score=60.60  Aligned_cols=32  Identities=28%  Similarity=0.345  Sum_probs=28.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      ..+.|.|++|+|||++++.+|..+|+++++.+
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~g~~~~~~d   35 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASELSMIYVDTG   35 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTCEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCceecCC
Confidence            46899999999999999999999998887654

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.53  E-value=0.0025  Score=57.08  Aligned_cols=33  Identities=24%  Similarity=0.496  Sum_probs=26.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC---CcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK---FDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~---~~v~~l~  273 (455)
                      +.-++|.|+||+||||+++.+|..++   ..+..++
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~   48 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLD   48 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEee
Confidence            45689999999999999999999884   4454444

>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=96.52  E-value=0.013  Score=50.02  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            36899999999999999999864

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.52  E-value=0.0016  Score=59.57  Aligned_cols=29  Identities=28%  Similarity=0.438  Sum_probs=25.4

Q ss_pred             CCCCceeEEECCCCCChHHHHHHHHHHcC
Q 047029          238 KAWKRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .+.++-++|.||||+||||+++.++..++
T Consensus         9 ~~~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A            9 MARIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            44566799999999999999999999885

>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=96.52  E-value=0.0013  Score=60.62  Aligned_cols=32  Identities=31%  Similarity=0.467  Sum_probs=27.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +.-+.|.|++|+||||+++.++. +|+.+++.+
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~-lg~~~id~D   35 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD-LGINVIDAD   35 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH-TTCEEEEHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH-cCCEEEEcc
Confidence            34688999999999999999998 888777654

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.49  E-value=0.0017  Score=58.19  Aligned_cols=26  Identities=15%  Similarity=0.390  Sum_probs=23.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .+-+.|.||+|+|||||++.+++.+.
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            45689999999999999999999864

>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=96.48  E-value=0.00083  Score=61.30  Aligned_cols=26  Identities=23%  Similarity=0.155  Sum_probs=23.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +.-+.|.|+||+||||+++.+++.++
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~   34 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALC   34 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45689999999999999999999874

>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=96.46  E-value=0.0011  Score=60.62  Aligned_cols=33  Identities=15%  Similarity=0.210  Sum_probs=26.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc-CCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL-KFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l-~~~v~~l~  273 (455)
                      +.-+.|.||||+||||+++.+++.+ +..++..+
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~~~~~~~i~~D   54 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKHLPNCSVISQD   54 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTSTTEEEEEGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCcEEEeCC
Confidence            3457899999999999999999988 55554433

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.43  E-value=0.0023  Score=59.82  Aligned_cols=33  Identities=24%  Similarity=0.384  Sum_probs=28.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +..+.|.||+|+||||+++.+|+.+|+.+++.+
T Consensus        16 ~~~i~i~G~~gsGKst~~~~l~~~lg~~~~d~d   48 (236)
T 1q3t_A           16 TIQIAIDGPASSGKSTVAKIIAKDFGFTYLDTG   48 (236)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCceecCC
Confidence            345889999999999999999999998877643

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.43  E-value=0.0024  Score=59.37  Aligned_cols=38  Identities=26%  Similarity=0.170  Sum_probs=28.9

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      |++...-++|+||||+|||+++..+|...   +..++.++.
T Consensus        19 Gl~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~   59 (247)
T 2dr3_A           19 GIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVAL   59 (247)
T ss_dssp             SEETTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEc
Confidence            56667779999999999999988887653   455555543

>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=96.43  E-value=0.0019  Score=57.92  Aligned_cols=25  Identities=36%  Similarity=0.573  Sum_probs=22.2

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      -+.|.||+|+||||+++.+++.++.
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~~~g   28 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQLDN   28 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCC
Confidence            5789999999999999999987654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.40  E-value=0.0017  Score=58.83  Aligned_cols=26  Identities=23%  Similarity=0.249  Sum_probs=23.2

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .+.-+.|.||+|+||||+++.+++.+
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            34568999999999999999999987

>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=96.40  E-value=0.0012  Score=63.94  Aligned_cols=30  Identities=30%  Similarity=0.316  Sum_probs=25.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc-CCcEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL-KFDIY  270 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l-~~~v~  270 (455)
                      +.-++|.||||+||||+++.++..+ ++.++
T Consensus         2 ~~~I~l~G~~GsGKST~a~~L~~~~~~~~~i   32 (301)
T 1ltq_A            2 KKIILTIGCPGSGKSTWAREFIAKNPGFYNI   32 (301)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHSTTEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhCCCcEEe
Confidence            3568999999999999999999974 65554

>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=96.39  E-value=0.0018  Score=61.33  Aligned_cols=28  Identities=25%  Similarity=0.197  Sum_probs=25.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFD  268 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~  268 (455)
                      +.-+.|.||||+||||+++.++..++.+
T Consensus        22 ~~iI~I~G~~GSGKST~a~~L~~~lg~~   49 (252)
T 1uj2_A           22 PFLIGVSGGTASGKSSVCAKIVQLLGQN   49 (252)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhhhh
Confidence            4468999999999999999999999876

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.37  E-value=0.0071  Score=55.06  Aligned_cols=35  Identities=14%  Similarity=0.238  Sum_probs=28.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      +.-+.|.||+|+||||+++.++..+   +.+++.++..
T Consensus        22 ~~~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d   59 (201)
T 1rz3_A           22 RLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMD   59 (201)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEeccC
Confidence            3458899999999999999999986   6667666444

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=96.36  E-value=0.024  Score=60.18  Aligned_cols=74  Identities=5%  Similarity=0.068  Sum_probs=48.9

Q ss_pred             eEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC--CCCccccCCCceeEEEEe
Q 047029          294 SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE--RLDPALLRPGRMDMHIHM  371 (455)
Q Consensus       294 ~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~--~Ld~allRpGR~d~~I~~  371 (455)
                      -+|+|||+..++...            .. .+...+..+-..-..  -++-+|++|.+|.  .|+..++.  -|...|.+
T Consensus       345 ivvVIDE~~~L~~~~------------~~-~~~~~L~~Iar~GRa--~GIhLIlaTQRPs~d~I~~~Ira--n~~~RI~l  407 (574)
T 2iut_A          345 IVVVVDEFADMMMIV------------GK-KVEELIARIAQKARA--AGIHLILATQRPSVDVITGLIKA--NIPTRIAF  407 (574)
T ss_dssp             EEEEESCCTTHHHHT------------CH-HHHHHHHHHHHHCTT--TTEEEEEEESCCCTTTSCHHHHH--TCCEEEEE
T ss_pred             EEEEEeCHHHHhhhh------------hH-HHHHHHHHHHHHHhh--CCeEEEEEecCcccccccHHHHh--hhccEEEE
Confidence            589999999876411            01 122233333222222  4588889998886  78887776  78888999


Q ss_pred             CCCCHHHHHHHHH
Q 047029          372 SYLTPGGFKILAF  384 (455)
Q Consensus       372 ~~p~~~~~~~L~~  384 (455)
                      ...+..+.+.++.
T Consensus       408 rv~s~~Dsr~ILd  420 (574)
T 2iut_A          408 QVSSKIDSRTILD  420 (574)
T ss_dssp             CCSCHHHHHHHHS
T ss_pred             EcCCHHHHHHhcC
Confidence            9888888776663

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.34  E-value=0.0095  Score=61.52  Aligned_cols=38  Identities=16%  Similarity=0.233  Sum_probs=30.0

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~  274 (455)
                      |+++..-++|.||||+|||+++..+|..+    |.++..+++
T Consensus       199 Gl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~  240 (454)
T 2r6a_A          199 GFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSL  240 (454)
T ss_dssp             SBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEES
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEEC
Confidence            56666679999999999999999998765    456666553

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.34  E-value=0.0016  Score=64.86  Aligned_cols=36  Identities=25%  Similarity=0.434  Sum_probs=31.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL  277 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~  277 (455)
                      +-++|.||+|+|||+|+..||+.++..+++.|.-.+
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~Ds~qv   76 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAHFPLEVINSDKMQV   76 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTSCEEEEECCSSTT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHCCCcEEccccccc
Confidence            468999999999999999999999988887776543

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=96.32  E-value=0.0081  Score=51.80  Aligned_cols=24  Identities=29%  Similarity=0.331  Sum_probs=21.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -.+++.|++|+|||+|+.++.+.-
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            368999999999999999998754

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=96.31  E-value=0.022  Score=59.79  Aligned_cols=74  Identities=5%  Similarity=0.020  Sum_probs=47.5

Q ss_pred             eEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC--CCCccccCCCceeEEEEe
Q 047029          294 SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE--RLDPALLRPGRMDMHIHM  371 (455)
Q Consensus       294 ~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~--~Ld~allRpGR~d~~I~~  371 (455)
                      -+|+|||...++...             ......++..+-.....  -++-+|++|.++.  .++..++.  -+...|.+
T Consensus       299 ivlvIDE~~~ll~~~-------------~~~~~~~l~~Lar~gRa--~GI~LIlaTQrp~~dvl~~~i~~--n~~~RI~l  361 (512)
T 2ius_A          299 IVVLVDEFADLMMTV-------------GKKVEELIARLAQKARA--AGIHLVLATQRPSVDVITGLIKA--NIPTRIAF  361 (512)
T ss_dssp             EEEEEETHHHHHHHH-------------HHHHHHHHHHHHHHCGG--GTEEEEEEESCCCTTTSCHHHHH--HCCEEEEE
T ss_pred             EEEEEeCHHHHHhhh-------------hHHHHHHHHHHHHHhhh--CCcEEEEEecCCccccccHHHHh--hcCCeEEE
Confidence            389999998775410             01122333333222112  2477888888876  57777776  78888999


Q ss_pred             CCCCHHHHHHHHH
Q 047029          372 SYLTPGGFKILAF  384 (455)
Q Consensus       372 ~~p~~~~~~~L~~  384 (455)
                      ...+..+.+.++.
T Consensus       362 rv~s~~dsr~ilg  374 (512)
T 2ius_A          362 TVSSKIDSRTILD  374 (512)
T ss_dssp             CCSSHHHHHHHHS
T ss_pred             EcCCHHHHHHhcC
Confidence            9999888887765

>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=96.31  E-value=0.0018  Score=59.70  Aligned_cols=32  Identities=22%  Similarity=0.294  Sum_probs=26.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      .++++|.||+|+|||+++.+++...+ .++..|
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g~-~iIsdD   65 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRGH-RLIADD   65 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTTC-EEEESS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhCC-eEEecc
Confidence            56899999999999999999999876 554433

>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=96.30  E-value=0.0025  Score=62.66  Aligned_cols=34  Identities=21%  Similarity=0.511  Sum_probs=29.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      ++-+++.||+|+|||+|+..+|+.++..++..|.
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds   43 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKILPVELISVDS   43 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEECCT
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhCCCcEEeccc
Confidence            5578899999999999999999999877776654

>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=96.30  E-value=0.0081  Score=58.57  Aligned_cols=61  Identities=15%  Similarity=0.270  Sum_probs=41.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc----CCcEEEEeccccC----------------------ChHHHHHHHHhhCCce
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMELASLR----------------------SNSDLRRLLVSTGNRS  294 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~~~~~----------------------~~~~l~~ll~~~~~~~  294 (455)
                      ++.++|.||+|+||||++..+|..+    |..+..++.....                      +...++..+.....+.
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~~~~l~~al~~~~~~d  184 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKELFSEYD  184 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSSHHHHHHHHHHGGGSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHHHHHhcCCCeEecCCHHHHHHHHHHhcCCC
Confidence            5578999999999999999999876    4466655543221                      1123444444455678


Q ss_pred             EEEEecc
Q 047029          295 ILVIEDI  301 (455)
Q Consensus       295 IL~iDEi  301 (455)
                      +++||-.
T Consensus       185 lvIiDT~  191 (296)
T 2px0_A          185 HVFVDTA  191 (296)
T ss_dssp             EEEEECC
T ss_pred             EEEEeCC
Confidence            9999943

>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=96.27  E-value=0.0031  Score=57.85  Aligned_cols=33  Identities=24%  Similarity=0.376  Sum_probs=27.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC----CcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK----FDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~----~~v~~l~  273 (455)
                      +.-++|.|+||+||||+++.+++.++    .+++.++
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~   61 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLD   61 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEEC
Confidence            45688999999999999999999875    4466555

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=96.25  E-value=0.017  Score=49.21  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=20.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .+++.|++|+|||+|+.++++..
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            58999999999999999998753

>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=96.22  E-value=0.0025  Score=58.52  Aligned_cols=27  Identities=26%  Similarity=0.300  Sum_probs=23.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      ++-+.|.||+|+||||+++.|+..+..
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~~~~   34 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKDPET   34 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHSTTC
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhCCC
Confidence            445889999999999999999998853

>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=96.21  E-value=0.0022  Score=62.00  Aligned_cols=32  Identities=31%  Similarity=0.267  Sum_probs=26.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +.-+.|.|+||+||||+++.++ .+|+++++.+
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La-~lg~~~id~D  106 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK-NLGAYIIDSD  106 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH-HHTCEEEEHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH-HCCCcEEehh
Confidence            3468999999999999999999 6888776654

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=96.20  E-value=0.014  Score=53.01  Aligned_cols=25  Identities=24%  Similarity=0.511  Sum_probs=22.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ...++|.|++|+|||+|+.++++..
T Consensus        12 ~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           12 QPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4579999999999999999999864

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.19  E-value=0.004  Score=57.01  Aligned_cols=26  Identities=38%  Similarity=0.574  Sum_probs=23.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +.-+.|.||+|+|||||++.|+..+.
T Consensus        22 g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           22 RQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            44578999999999999999999885

>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=96.18  E-value=0.0039  Score=64.28  Aligned_cols=93  Identities=17%  Similarity=0.235  Sum_probs=61.9

Q ss_pred             HHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc------CCCceEEEEEc-----CCCC
Q 047029          285 RLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS------CGDERIIVFTT-----NYKE  353 (455)
Q Consensus       285 ~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~------~~~~~ivI~TT-----N~~~  353 (455)
                      ..+..+....|+++||||.+...    ......+....-....||..+||...+      ...++++|+|.     |..+
T Consensus       243 ~ai~~ae~~~il~~DEidki~~~----~~~~~~D~s~egvq~aLL~~le~~~~~~~~~~~d~~~ilfI~~gaf~~~~~~d  318 (444)
T 1g41_A          243 KAIDAVEQNGIVFIDEIDKICKK----GEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSD  318 (444)
T ss_dssp             HHHHHHHHHCEEEEETGGGGSCC----SSCSSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSCCGGG
T ss_pred             HHHHHhccCCeeeHHHHHHHhhc----cCCCCCCchHHHHHHHHHHHhcccccccccceecCCcEEEEeccccccCChhh
Confidence            34444446779999999998531    111111111222456789999984221      12568888887     4444


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHH
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAF  384 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~  384 (455)
                       +-|.|+.  ||..+|.++.++.+++..|+.
T Consensus       319 -lipel~~--R~~i~i~l~~lt~~e~~~Il~  346 (444)
T 1g41_A          319 -LIPELQG--RLPIRVELTALSAADFERILT  346 (444)
T ss_dssp             -SCHHHHT--TCCEEEECCCCCHHHHHHHHH
T ss_pred             -cchHHhc--ccceeeeCCCCCHHHHHHHHH
Confidence             4578887  999999999999999998883

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.17  E-value=0.0032  Score=56.89  Aligned_cols=26  Identities=31%  Similarity=0.609  Sum_probs=22.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+.|.||+|+||||+++.+++.+.
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~~   32 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKALA   32 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            34588999999999999999999864

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=96.13  E-value=0.0099  Score=51.14  Aligned_cols=24  Identities=25%  Similarity=0.344  Sum_probs=20.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -.+++.|++|+|||+|+.++.+.-
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            4 IKLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            368999999999999999998643

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=96.13  E-value=0.017  Score=52.08  Aligned_cols=24  Identities=21%  Similarity=0.245  Sum_probs=18.0

Q ss_pred             CceeEEECCCCCChHHH-HHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSL-IAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsl-a~alA~~  264 (455)
                      .+.+++.+|+|+|||.. +..+...
T Consensus        38 ~~~~li~~~TGsGKT~~~~~~~~~~   62 (207)
T 2gxq_A           38 GKDLIGQARTGTGKTLAFALPIAER   62 (207)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEECCCCChHHHHHHHHHHHH
Confidence            36799999999999976 3444444

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=96.12  E-value=0.0035  Score=57.57  Aligned_cols=30  Identities=13%  Similarity=0.139  Sum_probs=27.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .-+.|.||+|||||++++.+|+.||+++++
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg~~~~D   36 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYNIPLYS   36 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTCCEEC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCcCEEC
Confidence            468899999999999999999999999985

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.12  E-value=0.0048  Score=60.43  Aligned_cols=53  Identities=17%  Similarity=0.264  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHhhhc--CCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          213 PVLKQALIDDLDRFVKRREFYSRVG--KAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       213 ~~~k~~l~~~l~~~l~~~~~~~~~g--~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +.+++.+.+.+...+........+.  ...+.-+.|.||+|+||||+++.+|..+
T Consensus        70 ~~~~~~~~~~l~~~l~~~~~~~~l~~~~~~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           70 SEIKDALKESVLEMLAKKNSKTELQLGFRKPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             HHHHHHHHHHHHHHHCC--CCCSCCCCSSSCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCcccccccccccCCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3456666666665554321001222  3344568899999999999999999987

>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=96.10  E-value=0.0018  Score=66.24  Aligned_cols=31  Identities=23%  Similarity=0.260  Sum_probs=26.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      +.-++|.||||+||||+++.++..+++.+++
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~~~~~~i~  288 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVSAGYVHVN  288 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGGGTCEECC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhcCcEEEc
Confidence            4568999999999999999999999866543

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=96.09  E-value=0.025  Score=48.33  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.8

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999864

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.08  E-value=0.0029  Score=62.96  Aligned_cols=32  Identities=22%  Similarity=0.318  Sum_probs=27.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +-+.|.||+|+|||+++..+|..++..++..|
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~~~iis~D   39 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFNGEIISGD   39 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTEEEEECC
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcCCceeccc
Confidence            46899999999999999999999987666654

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=96.06  E-value=0.028  Score=51.39  Aligned_cols=58  Identities=17%  Similarity=0.144  Sum_probs=33.5

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcC---CCCceeEEECCCCCChHHH-HHHHHHH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGK---AWKRGYLLYGPPGTGKSSL-IAAMANY  264 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~---~~~rg~LL~GPpGTGKTsl-a~alA~~  264 (455)
                      .+|+++...+.+.+.+.+.=   +..+..++...+   ...+.+++.+|+|+|||.. +-.+...
T Consensus        14 ~~f~~l~l~~~l~~~l~~~g---~~~~~~~Q~~~i~~~~~~~~~lv~~pTGsGKT~~~~~~~l~~   75 (224)
T 1qde_A           14 YKFDDMELDENLLRGVFGYG---FEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR   75 (224)
T ss_dssp             CCGGGGTCCHHHHHHHHHHT---CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CChhhcCCCHHHHHHHHHCC---CCCCcHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHH
Confidence            57999988887776664420   111111111111   1136799999999999976 3344433

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=96.05  E-value=0.051  Score=46.45  Aligned_cols=22  Identities=18%  Similarity=0.303  Sum_probs=19.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      .+++.|++|+|||+|+.++.+.
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3789999999999999999864

>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=96.04  E-value=0.02  Score=50.29  Aligned_cols=24  Identities=25%  Similarity=0.380  Sum_probs=21.1

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -.+++.|++|+|||+|+.++.+.-
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            368999999999999999998753

>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=96.02  E-value=0.017  Score=50.38  Aligned_cols=23  Identities=35%  Similarity=0.502  Sum_probs=20.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46999999999999999999864

>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=96.01  E-value=0.025  Score=48.43  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=20.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            36899999999999999999874

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=96.01  E-value=0.031  Score=48.84  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            46999999999999999999864

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.99  E-value=0.0036  Score=57.09  Aligned_cols=26  Identities=35%  Similarity=0.556  Sum_probs=22.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ++-+.|.||+|+|||||++.+++.+.
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            45789999999999999999999763

>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=95.99  E-value=0.0038  Score=61.48  Aligned_cols=33  Identities=18%  Similarity=0.271  Sum_probs=28.0

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      +-+++.||+|+|||+|+..+|..++..++..|.
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds   36 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRLNGEVISGDS   36 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTTEEEEECCG
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhCccceeecCc
Confidence            457899999999999999999999876665554

>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=95.98  E-value=0.034  Score=49.03  Aligned_cols=24  Identities=21%  Similarity=0.332  Sum_probs=21.2

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -.+++.|++|+|||+|++.+.+..
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            468999999999999999988754

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.98  E-value=0.003  Score=57.63  Aligned_cols=26  Identities=27%  Similarity=0.261  Sum_probs=23.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +.-+.|.||+|+||||+++.+++.++
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34578999999999999999999987

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=95.97  E-value=0.019  Score=63.29  Aligned_cols=24  Identities=21%  Similarity=0.469  Sum_probs=19.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ...+++.||+|+|||+++..++..
T Consensus       109 ~~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A          109 NQIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            456999999999999977777544

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=95.97  E-value=0.026  Score=51.53  Aligned_cols=59  Identities=19%  Similarity=0.215  Sum_probs=33.6

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC---CCceeEEECCCCCChHHHHHHHHH
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKA---WKRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~---~~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      +..+|+++...+.+.+.+.+.=   +..+..++...++   ..+.+++.+|+|+|||..+...+-
T Consensus        12 ~~~~f~~~~l~~~l~~~l~~~g---~~~~~~~Q~~~i~~~~~~~~~li~~~TGsGKT~~~~~~~~   73 (220)
T 1t6n_A           12 HSSGFRDFLLKPELLRAIVDCG---FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL   73 (220)
T ss_dssp             --CCSTTSCCCHHHHHHHHHTT---CCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCCHhhcCCCHHHHHHHHHCC---CCCCCHHHHHHHHHHhCCCCEEEECCCCCchhhhhhHHHH
Confidence            3457888888887777665410   1111111111111   135799999999999976554443

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=95.96  E-value=0.014  Score=50.23  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999863

>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=95.93  E-value=0.0054  Score=54.18  Aligned_cols=28  Identities=25%  Similarity=0.255  Sum_probs=24.0

Q ss_pred             CCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          238 KAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ++...-+.|.||.|+|||||++++++.+
T Consensus        30 i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           30 TEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            3444458899999999999999999988

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=95.93  E-value=0.036  Score=49.47  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46999999999999999999864

>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=95.93  E-value=0.0046  Score=60.70  Aligned_cols=33  Identities=33%  Similarity=0.521  Sum_probs=27.7

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHcCCcE
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDI  269 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v  269 (455)
                      .+++...+.|.||+|+|||||++.|++.+.-.+
T Consensus       122 ~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~~G~I  154 (305)
T 2v9p_A          122 GIPKKNCLAFIGPPNTGKSMLCNSLIHFLGGSV  154 (305)
T ss_dssp             TCTTCSEEEEECSSSSSHHHHHHHHHHHHTCEE
T ss_pred             EecCCCEEEEECCCCCcHHHHHHHHhhhcCceE
Confidence            466667799999999999999999999984333

>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=95.91  E-value=0.0078  Score=62.01  Aligned_cols=61  Identities=18%  Similarity=0.310  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          213 PVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       213 ~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      +.+++.+.+.|...+..+...... ...+.-+++.||+|+||||++..+|..+   |..+..+++
T Consensus        73 ~~v~~~l~~eL~~~L~~~~~~~~~-~~~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~  136 (443)
T 3dm5_A           73 EHIIKIVYEELTKFLGTEAKPIEI-KEKPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCS  136 (443)
T ss_dssp             HHHHHHHHHHHHHHTTSSCCCCCC-CSSSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEC
T ss_pred             HHHHHHHHHHHHHHhcCccccccc-CCCCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            345556666666554431111111 1135678999999999999999999887   566665554

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=95.90  E-value=0.025  Score=49.73  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=20.8

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46999999999999999999873

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=95.90  E-value=0.016  Score=51.58  Aligned_cols=23  Identities=26%  Similarity=0.485  Sum_probs=20.8

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            46999999999999999999874

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=95.89  E-value=0.022  Score=49.45  Aligned_cols=25  Identities=28%  Similarity=0.444  Sum_probs=21.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ...+++.|++|+|||+|+.++.+.-
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            3469999999999999999998754

>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=95.87  E-value=0.0085  Score=58.78  Aligned_cols=59  Identities=14%  Similarity=0.065  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          215 LKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       215 ~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      +++.+.+.+...+.....+ .+....++-+++.||+|+||||++..+|..+   +..+..+++
T Consensus        79 ~~~~~~~~l~~~l~~~~~~-~~~~~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~  140 (306)
T 1vma_A           79 ALESLKEIILEILNFDTKL-NVPPEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAA  140 (306)
T ss_dssp             HHHHHHHHHHHHTCSCCCC-CCCSSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             HHHHHHHHHHHHhCCCCCC-cccCCCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEcc
Confidence            4555555555444322100 1112334568999999999999999999887   455655544

>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=95.86  E-value=0.0056  Score=55.67  Aligned_cols=61  Identities=15%  Similarity=0.207  Sum_probs=38.2

Q ss_pred             EEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhcccc--Cchh-----HHHhccCCHHHHHHHHHHHHH
Q 047029          367 MHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVE--VTPA-----EEFMKSEDADVALNGLVDFLL  431 (455)
Q Consensus       367 ~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~~~--~tpa-----~~l~~~~~~~~al~~l~~~l~  431 (455)
                      ..|.+-+|+.+..++-+...    +....++|.+.+..+.  +.-+     .+++-++|.+.|++.|.+.+.
T Consensus       116 ~~Ifi~pps~e~L~~RL~~R----g~e~~e~i~~Rl~~a~~e~~~~~~~~fD~vIvNddle~a~~~l~~iI~  183 (186)
T 1ex7_A          116 RFLFIAPPSVEDLKKRLEGR----GTETEESINKRLSAAQAELAYAETGAHDKVIVNDDLDKAYKELKDFIF  183 (186)
T ss_dssp             EEEEEECSCHHHHHHHHHHH----CCSCHHHHHHHHHHHHHHHHHHTTTCSSEEEECSSHHHHHHHHHHHHT
T ss_pred             eEEEEeCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHHHhhccccCCcEEEECcCHHHHHHHHHHHHH
Confidence            56888899988766544433    3344566665554322  1111     234568899999999988774

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.85  E-value=0.0067  Score=60.88  Aligned_cols=53  Identities=17%  Similarity=0.264  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHhhhc--CCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          213 PVLKQALIDDLDRFVKRREFYSRVG--KAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       213 ~~~k~~l~~~l~~~l~~~~~~~~~g--~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +.+++.+.+.|...+........+.  ...+.-+.|.||+|+||||+++.+|..+
T Consensus       127 ~~~~~~l~~~l~~~l~~~~~~~~l~l~~~~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          127 SEIKDALKESVLEMLAKKNSKTELQLGFRKPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             HHHHHHHHHHHHHHHCCC---CSCCCCSSSSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCcccCCCcceecCCCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            3455555555555553321001222  3344568999999999999999999987

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=95.84  E-value=0.0068  Score=65.13  Aligned_cols=34  Identities=26%  Similarity=0.440  Sum_probs=30.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      +.-++|.|+||+||||++++++..+   |.+++.++.
T Consensus        52 g~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lDg   88 (630)
T 1x6v_B           52 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDG   88 (630)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEESH
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEech
Confidence            4568999999999999999999999   999988863

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.84  E-value=0.029  Score=50.04  Aligned_cols=24  Identities=25%  Similarity=0.499  Sum_probs=21.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .-.+++.|++|+|||+|+.++.+.
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457999999999999999999875

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=95.83  E-value=0.013  Score=50.40  Aligned_cols=21  Identities=43%  Similarity=0.703  Sum_probs=19.0

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      -+++.|+||+|||+|+.++.+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            589999999999999999864

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=95.82  E-value=0.011  Score=66.38  Aligned_cols=100  Identities=16%  Similarity=0.260  Sum_probs=55.3

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc-----CCc----EEEE----------eccc-cC--------ChHHHHHHHHhhC
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL-----KFD----IYDM----------ELAS-LR--------SNSDLRRLLVSTG  291 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l-----~~~----v~~l----------~~~~-~~--------~~~~l~~ll~~~~  291 (455)
                      ..+-+.|.||.|+||||+.+.+|...     |..    -..+          ...+ +.        .-.++..++..+.
T Consensus       672 ~g~i~~ItGPNGaGKSTlLr~i~~i~~~aq~g~~vpa~~~~i~~~d~i~~~ig~~d~l~~~~stfs~em~~~~~il~~a~  751 (918)
T 3thx_B          672 SERVMIITGPNMGGKSSYIKQVALITIMAQIGSYVPAEEATIGIVDGIFTRMGAADNIYKGRSTFMEELTDTAEIIRKAT  751 (918)
T ss_dssp             SCCEEEEESCCCHHHHHHHHHHHHHHHHHHHTCCBSSSEEEEECCSEEEEEC----------CCHHHHHHHHHHHHHHCC
T ss_pred             CCeEEEEECCCCCchHHHHHHHHHHHHHhhcCccccchhhhhhHHHHHHHhCChHHHHHHhHHHhhHHHHHHHHHHHhcc
Confidence            34569999999999999999987532     211    0111          1111 00        0123334445567


Q ss_pred             CceEEEEecccchhhhhhhcCCCCCCCCcchhhH-hhhhhhhhcccccCCCceEEEEEcCCCCCCC
Q 047029          292 NRSILVIEDIDCSIELENRQCGGGYDENNSQVTL-SGLLNFVDGLWSSCGDERIIVFTTNYKERLD  356 (455)
Q Consensus       292 ~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~l-s~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld  356 (455)
                      .|++|++||...-.+            ......+ ..++..+-   ..  .+..+|++|++.+...
T Consensus       752 ~p~LlLLDEP~~GlD------------~~~~~~i~~~il~~L~---~~--~g~tvl~vTH~~el~~  800 (918)
T 3thx_B          752 SQSLVILDELGRGTS------------THDGIAIAYATLEYFI---RD--VKSLTLFVTHYPPVCE  800 (918)
T ss_dssp             TTCEEEEESTTTTSC------------HHHHHHHHHHHHHHHH---HT--TCCEEEEECSCGGGGG
T ss_pred             CCCEEEEeCCCCCCC------------HHHHHHHHHHHHHHHH---Hh--cCCeEEEEeCcHHHHH
Confidence            899999999875332            1112222 24444432   11  2357888998865543

>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=95.81  E-value=0.0074  Score=63.00  Aligned_cols=25  Identities=28%  Similarity=0.398  Sum_probs=22.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +.-+.|.||+|+||||+++.||+.+
T Consensus       293 GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          293 PFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCcccHHHHHHHHHHHh
Confidence            4458899999999999999999987

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.80  E-value=0.0052  Score=56.90  Aligned_cols=25  Identities=32%  Similarity=0.579  Sum_probs=22.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||+|+|||||++.|++.+
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4458899999999999999999987

>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=95.80  E-value=0.0055  Score=56.00  Aligned_cols=26  Identities=27%  Similarity=0.514  Sum_probs=23.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+.|.||+|+|||||+++|++.+.
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            44588999999999999999999884

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=95.79  E-value=0.018  Score=64.66  Aligned_cols=23  Identities=26%  Similarity=0.280  Sum_probs=20.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      .+-++|.||.|+||||+++.+|.
T Consensus       662 g~i~~ItGpNGsGKSTlLr~ial  684 (934)
T 3thx_A          662 QMFHIITGPNMGGKSTYIRQTGV  684 (934)
T ss_dssp             BCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999999953

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.77  E-value=0.012  Score=57.99  Aligned_cols=61  Identities=26%  Similarity=0.447  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHHHHHhHHHH---hhhc--CCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          215 LKQALIDDLDRFVKRREFY---SRVG--KAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       215 ~k~~l~~~l~~~l~~~~~~---~~~g--~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      +++.+.+.+...+.....-   ..+.  ...++-+++.||+|+||||++..+|..+   +..+..+++.
T Consensus        74 ~~~~~~~~l~~~l~~~~~~~~~~~l~~~~~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~D  142 (320)
T 1zu4_A           74 IKDALVESLYQAYTDNDWTNKKYRIDFKENRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAAD  142 (320)
T ss_dssp             HHHHHHHHHHHHHHCSCC----CCCCCCTTSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             HHHHHHHHHHHHhCcccccccccCccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCC
Confidence            5555555665555432100   1122  2345568999999999999999999887   5666666554

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.77  E-value=0.021  Score=59.80  Aligned_cols=34  Identities=18%  Similarity=0.321  Sum_probs=27.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      ++.+++.|+||+||||++..+|..+   |..+..+++
T Consensus       101 ~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~  137 (504)
T 2j37_W          101 QNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICA  137 (504)
T ss_dssp             -EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEec
Confidence            5579999999999999999999877   666666555

>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=95.72  E-value=0.0087  Score=58.22  Aligned_cols=26  Identities=31%  Similarity=0.323  Sum_probs=23.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +.-+.+.||+|+||||+++.++..++
T Consensus        31 ~~ii~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           31 PLFIFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhh
Confidence            44688999999999999999999885

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.72  E-value=0.0071  Score=57.87  Aligned_cols=26  Identities=42%  Similarity=0.658  Sum_probs=22.9

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +..-++|.||+|+||||+++++++.+
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            34458999999999999999999976

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=95.72  E-value=0.0085  Score=64.47  Aligned_cols=24  Identities=42%  Similarity=0.584  Sum_probs=20.4

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ...++.||||||||+++..++..+
T Consensus       196 ~~~li~GppGTGKT~~~~~~i~~l  219 (624)
T 2gk6_A          196 PLSLIQGPPGTGKTVTSATIVYHL  219 (624)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHHHHHHHH
Confidence            468999999999999888887665

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=95.71  E-value=0.022  Score=63.02  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=21.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .+-+.|.||.|+||||+++.+|..
T Consensus       607 g~i~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          607 RRMLIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHHH
Confidence            456899999999999999999975

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=95.69  E-value=0.025  Score=50.03  Aligned_cols=24  Identities=25%  Similarity=0.368  Sum_probs=21.2

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -.+++.|++|+|||+|+.++++..
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            368999999999999999998753

>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=95.69  E-value=0.0058  Score=58.99  Aligned_cols=37  Identities=16%  Similarity=0.066  Sum_probs=29.2

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEe
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDME  273 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~  273 (455)
                      |++...-++|.||||+|||+|+..+|..+    |..+..+.
T Consensus        31 ~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~   71 (296)
T 1cr0_A           31 GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM   71 (296)
T ss_dssp             SBCTTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence            56666779999999999999999999876    43454443

>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=95.68  E-value=0.0073  Score=55.41  Aligned_cols=26  Identities=23%  Similarity=0.445  Sum_probs=23.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ++-+.|.||+|+|||||+++|++...
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            45688999999999999999999875

>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=95.66  E-value=0.077  Score=54.94  Aligned_cols=23  Identities=30%  Similarity=0.544  Sum_probs=20.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -++|+||+|+|||+|+..++...
T Consensus       153 ~~~i~G~sGvGKTtL~~~l~~~~  175 (473)
T 1sky_E          153 KIGLFGGAGVGKTVLIQELIHNI  175 (473)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCccHHHHHHHhhh
Confidence            58999999999999999998765

>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=95.65  E-value=0.0059  Score=62.13  Aligned_cols=33  Identities=24%  Similarity=0.416  Sum_probs=28.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      ++-+++.||+|+|||+|+..+|..++..++..|
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~~~~~iis~D   34 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQKFNGEVINSD   34 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHHHTEEEEECC
T ss_pred             CcEEEEECcchhhHHHHHHHHHHHCCCeEeecC
Confidence            456889999999999999999999987766554

>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=95.64  E-value=0.033  Score=49.17  Aligned_cols=23  Identities=35%  Similarity=0.522  Sum_probs=20.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46999999999999999999875

>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=95.63  E-value=0.0089  Score=55.92  Aligned_cols=31  Identities=26%  Similarity=0.445  Sum_probs=25.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC--CcEEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK--FDIYDM  272 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~--~~v~~l  272 (455)
                      .-+.|.||||+||||+++.+++.++  .+++..
T Consensus        27 ~~i~i~G~~GsGKsT~~~~l~~~l~~~~~~~~~   59 (229)
T 4eaq_A           27 AFITFEGPEGSGKTTVINEVYHRLVKDYDVIMT   59 (229)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTTTSCEEEE
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhcCCCceee
Confidence            3478889999999999999999996  455433

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.63  E-value=0.02  Score=50.93  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=21.0

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .+++.|++|+|||+|+.++.+.-
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            59999999999999999998754

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=95.60  E-value=0.1  Score=50.67  Aligned_cols=58  Identities=12%  Similarity=0.049  Sum_probs=33.1

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcC----CCCceeEEECCCCCChHHHHHHHHHH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGK----AWKRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~----~~~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .+|+++...+.+.+.+.+.=   +..+..++...+    ..++.+++.+|+|+|||..+...+-.
T Consensus         6 ~~f~~~~l~~~~~~~l~~~g---~~~~~~~Q~~~i~~~~~~~~~~l~~~~TGsGKT~~~~~~~~~   67 (367)
T 1hv8_A            6 MNFNELNLSDNILNAIRNKG---FEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE   67 (367)
T ss_dssp             CCGGGSSCCHHHHHHHHHHT---CCSCCHHHHHHHHHHHHTCSEEEEECCSSSSHHHHHHHHHHH
T ss_pred             CchhhcCCCHHHHHHHHHcC---CCCCCHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHH
Confidence            46778877777766654410   011111111111    11368999999999999876554433

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=95.60  E-value=0.037  Score=49.79  Aligned_cols=19  Identities=37%  Similarity=0.377  Sum_probs=15.5

Q ss_pred             CceeEEECCCCCChHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIA  259 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~  259 (455)
                      .+++++.+|+|+|||..+.
T Consensus        40 ~~~~lv~apTGsGKT~~~~   58 (206)
T 1vec_A           40 GRDILARAKNGTGKSGAYL   58 (206)
T ss_dssp             TCCEEEECCSSSTTHHHHH
T ss_pred             CCCEEEECCCCCchHHHHH
Confidence            3689999999999996433

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.59  E-value=0.0072  Score=56.85  Aligned_cols=30  Identities=20%  Similarity=0.375  Sum_probs=26.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      -+-|.||||+||||+++.||+.+++..+..
T Consensus        10 ~~~~~G~pGsGKsT~a~~L~~~~g~~~is~   39 (230)
T 3gmt_A           10 RLILLGAPGAGKGTQANFIKEKFGIPQIST   39 (230)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCCEECH
T ss_pred             ceeeECCCCCCHHHHHHHHHHHhCCCeeec
Confidence            456889999999999999999999887643

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=95.59  E-value=0.023  Score=49.14  Aligned_cols=23  Identities=39%  Similarity=0.593  Sum_probs=20.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|+||+|||+|+.++.+.
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCccHHHHHHHHhcC
Confidence            46899999999999999999753

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.58  E-value=0.021  Score=56.01  Aligned_cols=39  Identities=18%  Similarity=0.174  Sum_probs=31.2

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      |+++..-++|.|+||+|||+++..+|...   +.++..+.+.
T Consensus        64 Gl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~slE  105 (315)
T 3bh0_A           64 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLE  105 (315)
T ss_dssp             SBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEESS
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEECC
Confidence            67777779999999999999999998765   4566666544

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=95.54  E-value=0.032  Score=48.92  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=20.8

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        19 ~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           19 YKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999865

>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=95.52  E-value=0.0083  Score=55.83  Aligned_cols=28  Identities=39%  Similarity=0.511  Sum_probs=23.8

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcC
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +...-+.|.||+|+|||||++++++.+.
T Consensus        14 ~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            3445688999999999999999999875

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=95.51  E-value=0.0069  Score=61.03  Aligned_cols=28  Identities=39%  Similarity=0.611  Sum_probs=24.1

Q ss_pred             CCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          238 KAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +.+...+++.||+|+||||+++++++.+
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~  160 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYI  160 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3445568999999999999999999976

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.48  E-value=0.021  Score=49.05  Aligned_cols=21  Identities=33%  Similarity=0.596  Sum_probs=19.7

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      .+++.|++|+|||+|+.++.+
T Consensus         5 ~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            589999999999999999986

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=95.46  E-value=0.044  Score=48.93  Aligned_cols=24  Identities=17%  Similarity=0.282  Sum_probs=20.8

Q ss_pred             CCceeEEECCCCCChHHHHHHHHH
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      ..-.+++.|++|+|||+|+.++.+
T Consensus        28 ~~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           28 KQMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCS
T ss_pred             CccEEEEECCCCCCHHHHHHHHHh
Confidence            345799999999999999999864

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=95.46  E-value=0.0075  Score=56.38  Aligned_cols=30  Identities=20%  Similarity=0.181  Sum_probs=27.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .-+.+.|++|||||++++.+|..+|+++++
T Consensus        15 ~iI~i~g~~gsGk~~i~~~la~~lg~~~~d   44 (223)
T 3hdt_A           15 LIITIEREYGSGGRIVGKKLAEELGIHFYD   44 (223)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTCEEEC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHcCCcEEc
Confidence            468899999999999999999999999876

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=95.46  E-value=0.04  Score=53.65  Aligned_cols=35  Identities=23%  Similarity=0.320  Sum_probs=28.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      ++-+.+.||+|+||||++..+|..+   +..+..+++.
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D  135 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGAD  135 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecC
Confidence            4568888999999999999999887   6666665554

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=95.43  E-value=0.02  Score=58.60  Aligned_cols=24  Identities=38%  Similarity=0.479  Sum_probs=22.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      -+++.||+|+||||+++++++.+.
T Consensus       169 ii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             eEEEECCCCCCHHHHHHHHHhhcC
Confidence            478999999999999999999884

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=95.41  E-value=0.031  Score=50.04  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=21.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ...+++.|++|+|||+|+.++.+.
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            457999999999999999999864

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=95.41  E-value=0.033  Score=49.83  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=21.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ...+++.|++|+|||+|+.++.+.
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999999864

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=95.39  E-value=0.022  Score=51.82  Aligned_cols=63  Identities=17%  Similarity=0.189  Sum_probs=39.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc--c------cCC----------hHHHHHHHHhhC-CceEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA--S------LRS----------NSDLRRLLVSTG-NRSILVIE  299 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~--~------~~~----------~~~l~~ll~~~~-~~~IL~iD  299 (455)
                      +-++++||+|+|||+.+..+|..+   +..++.+...  .      +.+          -....+++.... ...+|+||
T Consensus         9 ~i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k~~~d~r~~~~~i~s~~g~~~~a~~~~~~~~i~~~~~~~~dvViID   88 (191)
T 1xx6_A            9 WVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNSREILKYFEEDTEVIAID   88 (191)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEESSSTHHHHHCCTTCSEEEEC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCccchHHHHHhhcCCceeeEeeCCHHHHHHHHhccCCEEEEE
Confidence            357889999999999998888876   6666554311  0      000          011123444333 35799999


Q ss_pred             cccch
Q 047029          300 DIDCS  304 (455)
Q Consensus       300 EiD~l  304 (455)
                      |+..+
T Consensus        89 Eaqfl   93 (191)
T 1xx6_A           89 EVQFF   93 (191)
T ss_dssp             SGGGS
T ss_pred             CCCCC
Confidence            99875

>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=95.39  E-value=0.0033  Score=57.25  Aligned_cols=24  Identities=21%  Similarity=0.414  Sum_probs=21.9

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      -+.|.||+|+||||+++.|+..++
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            368899999999999999999985

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=95.36  E-value=0.042  Score=47.64  Aligned_cols=23  Identities=26%  Similarity=0.394  Sum_probs=21.0

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        10 ~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A           10 HKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46999999999999999999875

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=95.33  E-value=0.024  Score=50.25  Aligned_cols=24  Identities=21%  Similarity=0.265  Sum_probs=21.1

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -.+++.|++|+|||+|+.++.+.-
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           22 VHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             EEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            369999999999999999997654

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.33  E-value=0.009  Score=54.31  Aligned_cols=23  Identities=43%  Similarity=0.780  Sum_probs=21.2

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -+.|.||+|+||||+++.+++.+
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            47899999999999999999987

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.33  E-value=0.0099  Score=55.84  Aligned_cols=27  Identities=19%  Similarity=0.166  Sum_probs=23.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFD  268 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~  268 (455)
                      .-+-|.||+|+||||+++.+++.+|..
T Consensus        26 ~iigI~G~~GsGKSTl~k~L~~~lG~~   52 (245)
T 2jeo_A           26 FLIGVSGGTASGKSTVCEKIMELLGQN   52 (245)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHTGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhchh
Confidence            347889999999999999999988753

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=95.33  E-value=0.089  Score=46.33  Aligned_cols=24  Identities=29%  Similarity=0.452  Sum_probs=21.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..-+++.|++|+|||+|+.++.+.
T Consensus        16 ~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           16 EVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            346999999999999999999864

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=95.32  E-value=0.0092  Score=53.96  Aligned_cols=32  Identities=19%  Similarity=0.206  Sum_probs=28.1

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEEeccc
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS  276 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~  276 (455)
                      +|++|++|+|||++|..+|.. +.+++++....
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-~~~~~yiaT~~   33 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-APQVLYIATSQ   33 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-CSSEEEEECCC
T ss_pred             EEEECCCCCcHHHHHHHHHhc-CCCeEEEecCC
Confidence            689999999999999999988 88888777654

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=95.32  E-value=0.043  Score=49.39  Aligned_cols=23  Identities=17%  Similarity=0.294  Sum_probs=20.4

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+..+.+.
T Consensus        30 ~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           30 FKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhhC
Confidence            36999999999999999999764

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=95.31  E-value=0.018  Score=49.97  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=20.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            36899999999999999999864

>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=95.29  E-value=0.064  Score=47.46  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=20.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999864

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=95.27  E-value=0.015  Score=64.47  Aligned_cols=39  Identities=31%  Similarity=0.400  Sum_probs=28.6

Q ss_pred             cCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          211 MDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       211 g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +++.+++.+...+.                ..-.++.||||||||+++..++..+
T Consensus       357 Ln~~Q~~Av~~~l~----------------~~~~lI~GppGTGKT~ti~~~i~~l  395 (800)
T 2wjy_A          357 LNHSQVYAVKTVLQ----------------RPLSLIQGPPGTGKTVTSATIVYHL  395 (800)
T ss_dssp             CCHHHHHHHHHHHT----------------SSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHhcc----------------CCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            46667766654432                2367999999999999888887765

>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=95.25  E-value=0.025  Score=50.38  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=20.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            46999999999999999999864

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.23  E-value=0.043  Score=48.41  Aligned_cols=24  Identities=25%  Similarity=0.386  Sum_probs=21.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .-.+++.|++|+|||+|+.++.+.
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346899999999999999999876

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=95.23  E-value=0.038  Score=47.53  Aligned_cols=21  Identities=33%  Similarity=0.586  Sum_probs=18.9

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      .+++.|+||+|||+|+.++.+
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999999963

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=95.21  E-value=0.043  Score=64.07  Aligned_cols=27  Identities=30%  Similarity=0.497  Sum_probs=23.3

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcC
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +..-+.+.||+|+|||||++.+.+++.
T Consensus       443 ~G~~vaivG~sGsGKSTll~ll~~~~~  469 (1321)
T 4f4c_A          443 AGQTVALVGSSGCGKSTIISLLLRYYD  469 (1321)
T ss_dssp             TTCEEEEEECSSSCHHHHHHHHTTSSC
T ss_pred             CCcEEEEEecCCCcHHHHHHHhccccc
Confidence            344588999999999999999999884

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=95.19  E-value=0.023  Score=49.83  Aligned_cols=23  Identities=35%  Similarity=0.559  Sum_probs=20.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>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=95.18  E-value=0.019  Score=56.90  Aligned_cols=26  Identities=35%  Similarity=0.493  Sum_probs=23.3

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .+.-+.|.||+|+||||+++.+|..+
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            45568999999999999999999987

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.16  E-value=0.0064  Score=56.45  Aligned_cols=26  Identities=19%  Similarity=0.300  Sum_probs=15.9

Q ss_pred             CceeEEECCCCCChHHHHHHHH-HHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMA-NYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA-~~l~  266 (455)
                      ..-+.|.||+|+||||+++.++ +.+.
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~~   53 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQKN   53 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC----
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCCC
Confidence            4458899999999999999999 8763

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.15  E-value=0.01  Score=53.34  Aligned_cols=28  Identities=32%  Similarity=0.461  Sum_probs=23.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDI  269 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v  269 (455)
                      .+|+||.||+|+|||+++.++... |..+
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r-G~~l   43 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR-GHQL   43 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT-TCEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCeE
Confidence            579999999999999999999884 4443

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.15  E-value=0.0072  Score=63.54  Aligned_cols=62  Identities=15%  Similarity=0.358  Sum_probs=40.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC--CcEEEEeccc-cC-----------------ChHHHHHHHHhh--CCceEEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK--FDIYDMELAS-LR-----------------SNSDLRRLLVST--GNRSILVI  298 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~--~~v~~l~~~~-~~-----------------~~~~l~~ll~~~--~~~~IL~i  298 (455)
                      +.++++.||+|+||||+++++++.+.  ..++.++-.. +.                 ..-.+..++...  .+|.++++
T Consensus       260 g~~i~I~GptGSGKTTlL~aL~~~i~~~~giitied~~E~~~~~~~~v~~~~r~~~~~~~~~~~~~l~~~LR~~PD~iiv  339 (511)
T 2oap_1          260 KFSAIVVGETASGKTTTLNAIMMFIPPDAKVVSIEDTREIKLYHENWIAEVTRTGMGEGEIDMYDLLRAALRQRPDYIIV  339 (511)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCCCSSEEEEECBCCSSSCCBCHHHHHHTTGGGCCSEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCCCCCCEEEEcCcccccCCCCCeEEEEeecccccCCcCHHHHHHHhhccCCCeEEe
Confidence            45799999999999999999999884  3344443211 10                 111234444332  36889999


Q ss_pred             eccc
Q 047029          299 EDID  302 (455)
Q Consensus       299 DEiD  302 (455)
                      .|+-
T Consensus       340 gEir  343 (511)
T 2oap_1          340 GEVR  343 (511)
T ss_dssp             SCCC
T ss_pred             CCcC
Confidence            9985

>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=95.14  E-value=0.013  Score=52.52  Aligned_cols=27  Identities=22%  Similarity=0.218  Sum_probs=22.9

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ....-+.+.||+|+||||++..++..+
T Consensus         4 ~~~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            4 TMIPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            334578999999999999999999875

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=95.14  E-value=0.053  Score=49.09  Aligned_cols=23  Identities=22%  Similarity=0.410  Sum_probs=20.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.++|.|++|+|||+|+.++.+.
T Consensus        26 ~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           26 IKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            36999999999999999999863

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*

Probab=95.10  E-value=0.11  Score=51.18  Aligned_cols=56  Identities=18%  Similarity=0.215  Sum_probs=31.9

Q ss_pred             CCCcccccCHHHHHHHHHHHH-HHH-HhHHHHhhhcCCCCceeEEECCCCCChHHHHH
Q 047029          204 STFDTLAMDPVLKQALIDDLD-RFV-KRREFYSRVGKAWKRGYLLYGPPGTGKSSLIA  259 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~-~~l-~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~  259 (455)
                      .+|+++...+.+.+.+.+.=- .+. -..+.+..+-...++++++.+|+|+|||..+.
T Consensus         5 ~~f~~~~l~~~l~~~l~~~~~~~~~~~Q~~~i~~~~~~~~~~~lv~a~TGsGKT~~~~   62 (395)
T 3pey_A            5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFS   62 (395)
T ss_dssp             CSSTTSCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHCSSCCCEEEECCTTSCHHHHHH
T ss_pred             cCHhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHH
Confidence            578888888777776654100 000 00011111111124789999999999997654

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=95.09  E-value=0.056  Score=47.78  Aligned_cols=23  Identities=17%  Similarity=0.225  Sum_probs=20.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46999999999999999999864

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=95.08  E-value=0.066  Score=58.17  Aligned_cols=55  Identities=16%  Similarity=0.292  Sum_probs=31.6

Q ss_pred             CCCcccccCHHHHHHHHHH-HHHHHH-hHHHHhhhcCCCCceeEEECCCCCChHHHHH
Q 047029          204 STFDTLAMDPVLKQALIDD-LDRFVK-RREFYSRVGKAWKRGYLLYGPPGTGKSSLIA  259 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~-l~~~l~-~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~  259 (455)
                      .+|+++..++.+++.+.+. +..+.. ..+.+.. ++...+.+++.||+|+|||+.+.
T Consensus         8 ~~~~~l~l~~~~~~~l~~~g~~~l~~~Q~~~i~~-~~~~~~~~lv~apTGsGKT~~~~   64 (715)
T 2va8_A            8 MPIEDLKLPSNVIEIIKKRGIKKLNPPQTEAVKK-GLLEGNRLLLTSPTGSGKTLIAE   64 (715)
T ss_dssp             CBGGGSSSCHHHHHHHHTTSCCBCCHHHHHHHHT-TTTTTCCEEEECCTTSCHHHHHH
T ss_pred             CcHHHcCCCHHHHHHHHhCCCCCCCHHHHHHHHH-HhcCCCcEEEEcCCCCcHHHHHH
Confidence            4678887777666554331 000000 1111221 12336789999999999999873

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.07  E-value=0.039  Score=48.03  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=20.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            46899999999999999999864

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.06  E-value=0.01  Score=57.63  Aligned_cols=37  Identities=14%  Similarity=0.240  Sum_probs=26.2

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC---CcEEEEeccccC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK---FDIYDMELASLR  278 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~---~~v~~l~~~~~~  278 (455)
                      .-+.|.||+|+||||+++.+++.++   ..+..++...+.
T Consensus         6 ~iIgItG~sGSGKSTva~~L~~~lg~~~~~~~vI~~D~~~   45 (290)
T 1a7j_A            6 PIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   45 (290)
T ss_dssp             CEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhcCCCeeEeecchhh
Confidence            3588999999999999999999876   445556665554

>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=95.06  E-value=0.038  Score=55.93  Aligned_cols=25  Identities=28%  Similarity=0.521  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+++.||+|||||+|++.+|+..
T Consensus       174 GQr~~IvG~sG~GKTtLl~~Iar~i  198 (422)
T 3ice_A          174 GQRGLIVAPPKAGKTMLLQNIAQSI  198 (422)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEecCCCCChhHHHHHHHHHH
Confidence            4459999999999999999999875

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.04  E-value=0.099  Score=46.01  Aligned_cols=23  Identities=13%  Similarity=0.367  Sum_probs=20.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      ...+++.|++|+|||+|+.++.+
T Consensus        16 ~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A           16 EHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            45799999999999999999984

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=95.04  E-value=0.024  Score=49.27  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=20.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.00  E-value=0.026  Score=55.63  Aligned_cols=25  Identities=20%  Similarity=0.149  Sum_probs=22.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .-+-|.||+|+||||+++.++..++
T Consensus        93 ~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           93 YIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3588899999999999999999885

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=95.00  E-value=0.033  Score=49.97  Aligned_cols=25  Identities=24%  Similarity=0.230  Sum_probs=21.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ...++|.|++|+|||+|+.++.+.-
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCC
Confidence            3469999999999999999998753

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=95.00  E-value=0.016  Score=61.09  Aligned_cols=33  Identities=18%  Similarity=0.317  Sum_probs=26.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      +.-++|.|+||+||||+++.+|.++   +.+...++
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La~~L~~~~~d~~v~s   70 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLTRYLNWIGVPTKVFN   70 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEec
Confidence            4568999999999999999999998   44444444

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=94.98  E-value=0.07  Score=58.73  Aligned_cols=25  Identities=28%  Similarity=0.337  Sum_probs=21.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||.|+||||+++.+|...
T Consensus       576 g~i~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          576 HELVLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHhhh
Confidence            4568999999999999999999753

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=94.98  E-value=0.034  Score=48.28  Aligned_cols=23  Identities=26%  Similarity=0.377  Sum_probs=20.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            36899999999999999999753

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=94.97  E-value=0.075  Score=45.62  Aligned_cols=24  Identities=21%  Similarity=0.382  Sum_probs=21.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ...+++.|++|+|||+|+.++.+.
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            346999999999999999999763

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=94.92  E-value=0.046  Score=50.49  Aligned_cols=21  Identities=29%  Similarity=0.477  Sum_probs=19.2

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      -++|.|.+|+|||+|+..+.+
T Consensus        15 KivlvGd~~VGKTsLi~r~~~   35 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMY   35 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCcCHHHHHHHHHh
Confidence            489999999999999999875

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.91  E-value=0.012  Score=52.24  Aligned_cols=27  Identities=22%  Similarity=0.538  Sum_probs=22.9

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .....+++.|++|+|||+|+.++++.-
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            334579999999999999999998753

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B*

Probab=94.91  E-value=0.028  Score=63.85  Aligned_cols=22  Identities=32%  Similarity=0.400  Sum_probs=19.8

Q ss_pred             CceeEEECCCCCChHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMA  262 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA  262 (455)
                      .+.++|.||.|+||||+++.++
T Consensus       789 g~i~~ItGpNgsGKSTlLr~iG  810 (1022)
T 2o8b_B          789 AYCVLVTGPNMGGKSTLMRQAG  810 (1022)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHH
Confidence            4679999999999999999994

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=94.91  E-value=0.019  Score=61.60  Aligned_cols=25  Identities=36%  Similarity=0.602  Sum_probs=21.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .+-+++.||||||||+++.++...+
T Consensus       164 ~~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          164 RRISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCHHHHHHHHHHHH
Confidence            4579999999999999998887665

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=94.87  E-value=0.028  Score=49.81  Aligned_cols=24  Identities=29%  Similarity=0.340  Sum_probs=21.2

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..+++.|++|+|||+|+.++.+.-
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            469999999999999999998753

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=94.87  E-value=0.086  Score=57.37  Aligned_cols=18  Identities=22%  Similarity=0.392  Sum_probs=16.4

Q ss_pred             CceeEEECCCCCChHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLI  258 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla  258 (455)
                      .+.+++.||+|+|||..+
T Consensus        39 ~~~~lv~apTGsGKT~~~   56 (720)
T 2zj8_A           39 GKNALISIPTASGKTLIA   56 (720)
T ss_dssp             TCEEEEECCGGGCHHHHH
T ss_pred             CCcEEEEcCCccHHHHHH
Confidence            578999999999999876

>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=94.85  E-value=0.018  Score=56.41  Aligned_cols=25  Identities=36%  Similarity=0.578  Sum_probs=22.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +.-+.|.||+|+||||+++.+|..+
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            4568899999999999999999987

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=94.81  E-value=0.042  Score=48.96  Aligned_cols=22  Identities=27%  Similarity=0.563  Sum_probs=19.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~  263 (455)
                      ..+++.|++|+|||+|+.++.+
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~   48 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTD   48 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            3589999999999999999974

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.80  E-value=0.044  Score=48.59  Aligned_cols=23  Identities=30%  Similarity=0.504  Sum_probs=20.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus         9 ~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            9 YRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCcHHHHHHHHHcC
Confidence            46999999999999999999873

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=94.80  E-value=0.017  Score=51.10  Aligned_cols=24  Identities=29%  Similarity=0.290  Sum_probs=21.9

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      -.+|+||.|+|||+++.||+..++
T Consensus        28 ~~~i~G~NGsGKStll~ai~~~l~   51 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILFVLG   51 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHc
Confidence            568999999999999999999875

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=94.80  E-value=0.028  Score=50.52  Aligned_cols=23  Identities=35%  Similarity=0.507  Sum_probs=20.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999864

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=94.79  E-value=0.034  Score=49.36  Aligned_cols=22  Identities=32%  Similarity=0.667  Sum_probs=20.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      .+++.|++|+|||+|+.++.+.
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           23 KYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            5899999999999999999864

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=94.79  E-value=0.053  Score=50.44  Aligned_cols=52  Identities=10%  Similarity=0.037  Sum_probs=29.6

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcC---CCCceeEEECCCCCChHHHH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGK---AWKRGYLLYGPPGTGKSSLI  258 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~---~~~rg~LL~GPpGTGKTsla  258 (455)
                      .+|+++...+.+.+.+.+.  . +..+..++..-+   ...+.+++.+|+|+|||...
T Consensus        29 ~~f~~~~l~~~l~~~l~~~--g-~~~~~~~Q~~~i~~~~~g~~~l~~apTGsGKT~~~   83 (242)
T 3fe2_A           29 LNFYEANFPANVMDVIARQ--N-FTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSY   83 (242)
T ss_dssp             SSTTTTTCCHHHHHHHHTT--T-CCSCCHHHHHHHHHHHHTCCEEEEECTTSCHHHHH
T ss_pred             CCHhhcCCCHHHHHHHHHC--C-CCCCCHHHHHHHHHHhCCCCEEEECCCcCHHHHHH
Confidence            5788888777766655431  0 000111111100   01367999999999999763

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=94.78  E-value=0.02  Score=50.19  Aligned_cols=24  Identities=25%  Similarity=0.386  Sum_probs=10.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ...+++.|++|+|||+|+.++.+.
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEECCCCC------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346999999999999999998754

>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=94.78  E-value=0.028  Score=50.18  Aligned_cols=32  Identities=13%  Similarity=0.227  Sum_probs=26.1

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      +-+.+.|++|+||||++..++..+   |+.+..+.
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik   39 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   39 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEE
Confidence            468899999999999999999986   45555444

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=94.77  E-value=0.02  Score=63.35  Aligned_cols=32  Identities=38%  Similarity=0.424  Sum_probs=23.2

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc----CCcEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL----KFDIYDME  273 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~  273 (455)
                      .-+++.||||||||+++..++..+    +..+..+.
T Consensus       376 ~~~lI~GppGTGKT~~i~~~i~~l~~~~~~~ILv~a  411 (802)
T 2xzl_A          376 PLSLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCA  411 (802)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEEc
Confidence            357999999999999887776544    44554443

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=94.77  E-value=0.028  Score=65.70  Aligned_cols=25  Identities=32%  Similarity=0.660  Sum_probs=22.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+-|.||+|+|||||++++.+.+
T Consensus      1105 Ge~vaIVG~SGsGKSTL~~lL~rl~ 1129 (1321)
T 4f4c_A         1105 GQTLALVGPSGCGKSTVVALLERFY 1129 (1321)
T ss_dssp             TCEEEEECSTTSSTTSHHHHHTTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCc
Confidence            3447899999999999999999877

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=94.74  E-value=0.027  Score=57.86  Aligned_cols=38  Identities=13%  Similarity=0.091  Sum_probs=30.3

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~  274 (455)
                      |+++..-++|.|+||+|||+++..+|...    +.++..+++
T Consensus       196 Gl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~sl  237 (444)
T 2q6t_A          196 TLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSL  237 (444)
T ss_dssp             CCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEES
T ss_pred             CcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEC
Confidence            56666679999999999999999998754    456766654

>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=94.70  E-value=0.02  Score=56.27  Aligned_cols=26  Identities=19%  Similarity=0.114  Sum_probs=22.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +.-+-|.||+|+|||||++.|+..+.
T Consensus        90 g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           90 PFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCchHHHHHHHHHhhcc
Confidence            34578899999999999999999874

>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=94.69  E-value=0.021  Score=60.80  Aligned_cols=33  Identities=18%  Similarity=0.110  Sum_probs=28.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC----CcEEEEec
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK----FDIYDMEL  274 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~----~~v~~l~~  274 (455)
                      ..++|.|+||+||||++++++..++    .+++.++.
T Consensus       397 ~~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD~  433 (573)
T 1m8p_A          397 FTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLG  433 (573)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEH
T ss_pred             eEEEeecCCCCCHHHHHHHHHHHhcccCCceEEEECc
Confidence            4588999999999999999999986    67777763

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.67  E-value=0.02  Score=53.43  Aligned_cols=25  Identities=20%  Similarity=0.321  Sum_probs=22.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +-+.+.|++|+||||+++.+++.++
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            4588999999999999999999994

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii}

Probab=94.66  E-value=0.2  Score=48.11  Aligned_cols=31  Identities=16%  Similarity=0.156  Sum_probs=22.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .+.+++.+|+|+|||..+...+-..+..++.
T Consensus        31 ~~~~lv~~~TGsGKT~~~~~~~~~~~~~~li   61 (337)
T 2z0m_A           31 GKNVVVRAKTGSGKTAAYAIPILELGMKSLV   61 (337)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             CCCEEEEcCCCCcHHHHHHHHHHhhcCCEEE
Confidence            3579999999999998766665555444433

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=94.66  E-value=0.018  Score=53.34  Aligned_cols=31  Identities=26%  Similarity=0.339  Sum_probs=28.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      .+-|+|..||||||+++.++. +|+++++.|.
T Consensus        11 ~iglTGgigsGKStv~~~l~~-~g~~vidaD~   41 (210)
T 4i1u_A           11 AIGLTGGIGSGKTTVADLFAA-RGASLVDTDL   41 (210)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH-TTCEEEEHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcEEECcH
Confidence            578999999999999999998 9999998775

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=94.65  E-value=0.062  Score=47.85  Aligned_cols=22  Identities=27%  Similarity=0.498  Sum_probs=20.4

Q ss_pred             ceeEEECCCCCChHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~  263 (455)
                      ..+++.|++|+|||+|+.++++
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3689999999999999999997

>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=94.64  E-value=0.036  Score=50.21  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=20.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            46899999999999999999864

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.63  E-value=0.03  Score=57.49  Aligned_cols=37  Identities=19%  Similarity=0.293  Sum_probs=30.2

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEeccc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMELAS  276 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~~~  276 (455)
                      .++.+++.|++|+||||++..+|..+    |..+..+++..
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~  139 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADV  139 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCC
Confidence            45678999999999999999999876    66777666653

>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=94.61  E-value=0.024  Score=56.11  Aligned_cols=63  Identities=16%  Similarity=0.307  Sum_probs=40.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC--cEEEEeccc-c-----------C--ChHHHHHHHHh--hCCceEEEEeccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF--DIYDMELAS-L-----------R--SNSDLRRLLVS--TGNRSILVIEDID  302 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~--~v~~l~~~~-~-----------~--~~~~l~~ll~~--~~~~~IL~iDEiD  302 (455)
                      ...+++.||+|+||||+++++++.+..  ..+.++-.. +           .  .....+..+..  ..+|.+|++||..
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~~~~~g~i~i~~~~e~~~~~~~~~i~~~~ggg~~~r~~la~aL~~~p~ilildE~~  250 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGELR  250 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGSCTTSCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEECCCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcCCCcEEEECCeeccccccchhEEEEEeCCChhHHHHHHHHhhhCCCEEEEcCCC
Confidence            457999999999999999999998742  233333211 0           0  12223333332  2478999999976


Q ss_pred             c
Q 047029          303 C  303 (455)
Q Consensus       303 ~  303 (455)
                      .
T Consensus       251 ~  251 (330)
T 2pt7_A          251 S  251 (330)
T ss_dssp             S
T ss_pred             h
Confidence            3

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.59  E-value=0.02  Score=53.01  Aligned_cols=32  Identities=28%  Similarity=0.273  Sum_probs=25.8

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      .-+.|.||+|+||||+++.+++.+   +++++...
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~v~~~~   41 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERLRERGIEVQLTR   41 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHHcCCCccccc
Confidence            347788999999999999999988   45665443

>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=94.53  E-value=0.018  Score=56.24  Aligned_cols=25  Identities=20%  Similarity=0.195  Sum_probs=22.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .-+-|.||+|+||||+++.|++.++
T Consensus        81 ~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           81 YIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3578899999999999999999876

>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=94.53  E-value=0.013  Score=55.21  Aligned_cols=26  Identities=31%  Similarity=0.317  Sum_probs=22.9

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ...-+.|.||+|+|||||++++++.+
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34568999999999999999999876

>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=94.52  E-value=0.013  Score=55.07  Aligned_cols=27  Identities=26%  Similarity=0.381  Sum_probs=23.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      ..-+.|.||.|+|||||++++++.+..
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~Gl~~p   57 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGCLDKP   57 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCCCC
Confidence            445889999999999999999988743

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.50  E-value=0.028  Score=52.65  Aligned_cols=30  Identities=17%  Similarity=0.153  Sum_probs=22.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc-------CCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL-------KFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l-------~~~v~~l  272 (455)
                      -+.|.||+|+||||+++.+++.+       |.+++..
T Consensus        27 ~I~~eG~~GsGKsT~~~~l~~~l~~~~~~~g~~v~~~   63 (227)
T 3v9p_A           27 FITFEGIDGAGKTTHLQWFCDRLQERLGPAGRHVVVT   63 (227)
T ss_dssp             EEEEECCC---CHHHHHHHHHHHHHHHGGGTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhhccccceeeeee
Confidence            47888999999999999999988       5666544

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=94.46  E-value=0.04  Score=48.17  Aligned_cols=23  Identities=30%  Similarity=0.330  Sum_probs=20.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+++.|++|+|||+|+.++.+.
T Consensus         7 ~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            7 RKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999853

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.46  E-value=0.019  Score=53.01  Aligned_cols=24  Identities=33%  Similarity=0.371  Sum_probs=21.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..-+.|.||.|+|||||+++++..
T Consensus        22 Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           22 NTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            345889999999999999999986

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.46  E-value=0.063  Score=48.19  Aligned_cols=24  Identities=33%  Similarity=0.457  Sum_probs=21.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ...+++.|++|+|||+|+.++.+.
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346899999999999999999864

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=94.45  E-value=0.048  Score=55.83  Aligned_cols=35  Identities=23%  Similarity=0.254  Sum_probs=27.9

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      .++.+++.||+|+||||++..+|..+   +..+..+++
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~  134 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAA  134 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeec
Confidence            35568888999999999999999987   455655554

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.41  E-value=0.012  Score=54.88  Aligned_cols=26  Identities=23%  Similarity=0.278  Sum_probs=22.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+.|.||.|+|||||++++++.+.
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl~~   55 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLLDA   55 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            34588999999999999999998774

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.39  E-value=0.0097  Score=56.49  Aligned_cols=28  Identities=14%  Similarity=0.383  Sum_probs=23.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc-CCcE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL-KFDI  269 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l-~~~v  269 (455)
                      .-+.|.|++|+||||+++.|++.+ +..+
T Consensus        25 ~~I~ieG~~GsGKST~~~~L~~~l~~~~~   53 (263)
T 1p5z_B           25 KKISIEGNIAAGKSTFVNILKQLCEDWEV   53 (263)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCTTEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            458889999999999999999998 4333

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=94.39  E-value=0.051  Score=49.07  Aligned_cols=25  Identities=24%  Similarity=0.315  Sum_probs=21.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ...+++.|++|+|||+|+.++.+..
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4579999999999999999998743

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.39  E-value=0.021  Score=57.14  Aligned_cols=26  Identities=27%  Similarity=0.529  Sum_probs=23.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ...++|.||+|+||||++++|++.+.
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            55799999999999999999999874

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.36  E-value=0.046  Score=49.75  Aligned_cols=26  Identities=23%  Similarity=0.328  Sum_probs=23.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .+.+++.|++|+||||++.+++..+.
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            45789999999999999999998863

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=94.35  E-value=0.023  Score=48.79  Aligned_cols=24  Identities=25%  Similarity=0.283  Sum_probs=21.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .-.+++.|++|+|||+|+.++.+.
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            346899999999999999999874

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.34  E-value=0.018  Score=54.36  Aligned_cols=28  Identities=32%  Similarity=0.527  Sum_probs=24.0

Q ss_pred             CCCCceeEEECCCCCChHHHHHHHHHHcC
Q 047029          238 KAWKRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ++. .-+.|.||+|+|||||++++++.+.
T Consensus        22 i~~-e~~~liG~nGsGKSTLl~~l~Gl~~   49 (240)
T 2onk_A           22 MGR-DYCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             ECS-SEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             ECC-EEEEEECCCCCCHHHHHHHHhCCCC
Confidence            344 5688999999999999999999874

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.33  E-value=0.024  Score=48.32  Aligned_cols=22  Identities=32%  Similarity=0.510  Sum_probs=20.2

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      .+++.|++|+|||+|+.++++.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999875

>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=94.32  E-value=0.022  Score=51.10  Aligned_cols=23  Identities=30%  Similarity=0.492  Sum_probs=20.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .-+.|.||+|+|||||++++++.
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            35889999999999999999986

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=94.32  E-value=0.068  Score=46.89  Aligned_cols=23  Identities=13%  Similarity=0.329  Sum_probs=20.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            36999999999999999999864

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=94.31  E-value=0.038  Score=54.85  Aligned_cols=38  Identities=21%  Similarity=0.176  Sum_probs=30.7

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      |+.+..-++|.|+||+|||+++..+|..+   +.++..+++
T Consensus        42 Gl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSl   82 (338)
T 4a1f_A           42 GFNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSL   82 (338)
T ss_dssp             SBCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEES
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            56666679999999999999999998875   666666554

>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=94.24  E-value=0.022  Score=50.99  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=20.9

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -+.|.||+|+|||||++.+++..
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            47899999999999999999864

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.20  E-value=0.017  Score=55.23  Aligned_cols=27  Identities=22%  Similarity=0.298  Sum_probs=23.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      ..-+.|.||.|+|||||++++++.+..
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~Gl~~p   58 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINFLEKP   58 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            345889999999999999999998753

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=94.18  E-value=0.015  Score=60.31  Aligned_cols=26  Identities=23%  Similarity=0.459  Sum_probs=23.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +..++|.|.||+||||+++.+|+.++
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45799999999999999999999874

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.18  E-value=0.023  Score=54.59  Aligned_cols=24  Identities=25%  Similarity=0.450  Sum_probs=21.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .+.|.||+|+|||||+++|++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            578999999999999999999873

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=94.18  E-value=0.021  Score=57.05  Aligned_cols=28  Identities=21%  Similarity=0.357  Sum_probs=24.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFD  268 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~  268 (455)
                      ..-+.|.||+|+|||||++.|++.+..+
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~~~  197 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFNTT  197 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCE
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            4568999999999999999999998654

>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=94.17  E-value=0.016  Score=54.57  Aligned_cols=25  Identities=24%  Similarity=0.527  Sum_probs=22.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||.|+|||||++++++.+
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4458899999999999999999876

>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=94.12  E-value=0.016  Score=54.16  Aligned_cols=26  Identities=27%  Similarity=0.415  Sum_probs=22.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+.|.||.|+|||||++++++.+.
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   59 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGELE   59 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            44588999999999999999999873

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=94.11  E-value=0.052  Score=48.77  Aligned_cols=22  Identities=18%  Similarity=0.440  Sum_probs=19.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~  263 (455)
                      .-+++.|++|+|||+|+.++.+
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3589999999999999999974

>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=94.09  E-value=0.016  Score=53.80  Aligned_cols=26  Identities=35%  Similarity=0.639  Sum_probs=22.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+.|.||.|+|||||++++++.+.
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~Gl~~   60 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTISTYLK   60 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            34588999999999999999999874

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.06  E-value=0.1  Score=51.93  Aligned_cols=24  Identities=42%  Similarity=0.631  Sum_probs=21.4

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .-+.|.|+||+|||||+.++++.+
T Consensus        75 ~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           75 FRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHh
Confidence            358899999999999999999865

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=94.04  E-value=0.11  Score=46.23  Aligned_cols=25  Identities=32%  Similarity=0.379  Sum_probs=21.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .-.+++.|++|+|||+|++.+.+..
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~~   44 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHKM   44 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhcC
Confidence            3469999999999999999887743

>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=94.04  E-value=0.019  Score=54.98  Aligned_cols=27  Identities=26%  Similarity=0.530  Sum_probs=23.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      ..-+.|.||.|+|||||++++++.+..
T Consensus        50 Gei~~liG~NGsGKSTLlk~l~Gl~~p   76 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLRCLNLLEDF   76 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHcCCCC
Confidence            445889999999999999999998743

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.04  E-value=0.038  Score=51.27  Aligned_cols=29  Identities=21%  Similarity=0.184  Sum_probs=25.0

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      .-+.|.||+|+||||+++.+++.++.++.
T Consensus         6 ~~i~~eG~~g~GKst~~~~l~~~l~~~~~   34 (216)
T 3tmk_A            6 KLILIEGLDRTGKTTQCNILYKKLQPNCK   34 (216)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHCSSEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcccce
Confidence            45788899999999999999999986443

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=94.04  E-value=0.073  Score=47.72  Aligned_cols=22  Identities=32%  Similarity=0.511  Sum_probs=19.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~  263 (455)
                      --+++.|++|+|||+|+..+++
T Consensus        24 ~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           24 FKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHTCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3689999999999999999963

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.03  E-value=0.019  Score=54.84  Aligned_cols=26  Identities=23%  Similarity=0.374  Sum_probs=22.9

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ...-+.|.||.|+|||||+++|++.+
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            34568999999999999999999876

>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=94.02  E-value=0.017  Score=55.03  Aligned_cols=26  Identities=42%  Similarity=0.744  Sum_probs=22.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+.|.||.|+|||||++++++.+.
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl~~   58 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGFLK   58 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            34588999999999999999998763

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.00  E-value=0.019  Score=55.15  Aligned_cols=26  Identities=35%  Similarity=0.553  Sum_probs=22.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+.|.||+|+|||||++.|++.+.
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~Gl~~   70 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQNLYQ   70 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            44588999999999999999998873

>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=93.97  E-value=0.026  Score=54.05  Aligned_cols=24  Identities=38%  Similarity=0.544  Sum_probs=21.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..-+.|.||.|+|||||++.|++.
T Consensus        46 Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            445889999999999999999996

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=93.91  E-value=0.044  Score=56.41  Aligned_cols=38  Identities=18%  Similarity=0.178  Sum_probs=30.4

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      |+.+..-+++.|+||+|||+++..+|...   |.++..+.+
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSl  233 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSL  233 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECS
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEEC
Confidence            56666669999999999999999998765   566766654

>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=93.91  E-value=0.018  Score=54.50  Aligned_cols=26  Identities=23%  Similarity=0.356  Sum_probs=22.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+.|.||+|+|||||++.|++.+.
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   60 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRFYI   60 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            44588999999999999999998873

>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=93.88  E-value=0.024  Score=53.66  Aligned_cols=24  Identities=38%  Similarity=0.439  Sum_probs=21.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..-+.|.||.|+|||||++++++.
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345889999999999999999996

>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=93.86  E-value=0.019  Score=54.48  Aligned_cols=28  Identities=39%  Similarity=0.470  Sum_probs=23.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFD  268 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~  268 (455)
                      ..-+.|.||.|+|||||++.+++.+...
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~~p~   53 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMTSGK   53 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCCE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            3458899999999999999999987543

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=93.85  E-value=0.023  Score=56.98  Aligned_cols=25  Identities=24%  Similarity=0.530  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||+|||||||+++||+..
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCC
Confidence            3348899999999999999999977

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=93.84  E-value=0.34  Score=44.19  Aligned_cols=18  Identities=22%  Similarity=0.298  Sum_probs=15.2

Q ss_pred             CceeEEECCCCCChHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLI  258 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla  258 (455)
                      .+.+++.+|+|+|||...
T Consensus        57 ~~~~l~~apTGsGKT~~~   74 (228)
T 3iuy_A           57 GIDLIVVAQTGTGKTLSY   74 (228)
T ss_dssp             TCCEEEECCTTSCHHHHH
T ss_pred             CCCEEEECCCCChHHHHH
Confidence            457999999999999743

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=93.82  E-value=0.088  Score=51.09  Aligned_cols=35  Identities=23%  Similarity=0.301  Sum_probs=27.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      ++.+.+.||+|+||||++..+|..+   +..+..+++.
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d  135 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAAD  135 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecCC
Confidence            4567888999999999999999887   5566655543

>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=93.81  E-value=0.02  Score=53.98  Aligned_cols=27  Identities=26%  Similarity=0.437  Sum_probs=23.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      ..-+.|.||.|+|||||++.+++.+..
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl~~p   58 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGLVRA   58 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            345889999999999999999998743

>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=93.80  E-value=0.02  Score=55.24  Aligned_cols=25  Identities=28%  Similarity=0.393  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||.|+|||||++++++.+
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC
Confidence            3458899999999999999999876

>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=93.79  E-value=0.023  Score=54.20  Aligned_cols=26  Identities=27%  Similarity=0.543  Sum_probs=22.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+.|.||.|+|||||+++|++.+.
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~Gl~~   66 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIISTLIK   66 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            34588999999999999999998763

>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=93.79  E-value=0.043  Score=57.55  Aligned_cols=26  Identities=12%  Similarity=0.014  Sum_probs=23.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      ..+.|.|++||||||+++++|+.|+.
T Consensus       396 ~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          396 FSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             eEEEecccCCCCHHHHHHHHHHHHHH
Confidence            46889999999999999999999985

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=93.77  E-value=0.035  Score=47.70  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=20.8

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999865

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens}

Probab=93.77  E-value=0.41  Score=47.42  Aligned_cols=52  Identities=13%  Similarity=0.185  Sum_probs=30.0

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcC---CCCceeEEECCCCCChHHHH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGK---AWKRGYLLYGPPGTGKSSLI  258 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~---~~~rg~LL~GPpGTGKTsla  258 (455)
                      .+|+++...+.+.+.+.+.=   +..+..++...+   ...+.+++.+|+|+|||..+
T Consensus        40 ~~f~~~~l~~~~~~~l~~~~---~~~~~~~Q~~~i~~~~~~~~~lv~a~TGsGKT~~~   94 (414)
T 3eiq_A           40 DSFDDMNLSESLLRGIYAYG---FEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATF   94 (414)
T ss_dssp             CCGGGGCCCHHHHHHHHHTT---CCSCCHHHHHHHHHHHTTCCEEECCCSCSSSHHHH
T ss_pred             cCHhhCCCCHHHHHHHHHcC---CCCCCHHHHHHhHHHhCCCCEEEECCCCCcccHHH
Confidence            57888888877766654310   001111111110   11456999999999999764

>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=93.71  E-value=0.033  Score=48.30  Aligned_cols=23  Identities=30%  Similarity=0.479  Sum_probs=20.4

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .-+.|.|++|+|||+|+.++++.
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            35889999999999999999863

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.70  E-value=0.023  Score=54.31  Aligned_cols=25  Identities=32%  Similarity=0.551  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||.|+|||||+++|++.+
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4458899999999999999999876

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.68  E-value=0.03  Score=56.12  Aligned_cols=25  Identities=36%  Similarity=0.570  Sum_probs=22.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||+|||||||+++||+.+
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCC
Confidence            3457899999999999999999976

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=93.67  E-value=0.037  Score=48.10  Aligned_cols=25  Identities=28%  Similarity=0.393  Sum_probs=21.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ...+++.|++|+|||+|+.++.+.-
T Consensus         8 ~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            8 ILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCc
Confidence            3469999999999999999998743

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=93.67  E-value=0.033  Score=47.81  Aligned_cols=23  Identities=35%  Similarity=0.507  Sum_probs=20.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            46899999999999999999864

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=93.66  E-value=0.033  Score=48.36  Aligned_cols=23  Identities=43%  Similarity=0.522  Sum_probs=20.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -.+++||.|+|||+++.||.-.+
T Consensus        25 ~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           25 INLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999998765

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=93.65  E-value=0.038  Score=51.99  Aligned_cols=25  Identities=28%  Similarity=0.404  Sum_probs=22.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +.-+.|.||+|+||||+++.+++.+
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3458889999999999999999988

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=93.63  E-value=0.031  Score=56.00  Aligned_cols=25  Identities=28%  Similarity=0.452  Sum_probs=22.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||+|||||||.++||+.+
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHCCC
Confidence            3457899999999999999999876

>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=93.63  E-value=0.057  Score=53.73  Aligned_cols=33  Identities=27%  Similarity=0.350  Sum_probs=26.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      ..-+.|.|+||+||||++.+++..+   |..+..++
T Consensus        79 ~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~  114 (355)
T 3p32_A           79 AHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLA  114 (355)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEe
Confidence            3468999999999999999999886   55554444

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.63  E-value=0.022  Score=54.16  Aligned_cols=26  Identities=23%  Similarity=0.350  Sum_probs=22.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+.|.||.|+|||||++++++.+.
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl~~   56 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGIHR   56 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            34588999999999999999999863

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=93.62  E-value=0.022  Score=54.96  Aligned_cols=26  Identities=31%  Similarity=0.666  Sum_probs=22.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+.|.||.|+|||||++++++.+.
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl~~   72 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAYEP   72 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            34588999999999999999998773

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=93.61  E-value=0.03  Score=56.59  Aligned_cols=25  Identities=32%  Similarity=0.506  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+-|.||+|||||||+++||+.+
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHcCC
Confidence            3358899999999999999999977

>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=93.60  E-value=0.061  Score=54.88  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=20.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -+.|.||+|+|||||++++++..
T Consensus        71 ~valvG~nGaGKSTLln~L~Gl~   93 (413)
T 1tq4_A           71 NVAVTGETGSGKSSFINTLRGIG   93 (413)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            57899999999999999999854

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=93.59  E-value=0.032  Score=56.15  Aligned_cols=25  Identities=28%  Similarity=0.482  Sum_probs=22.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||+|||||||+++||+.+
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC
Confidence            3458899999999999999999876

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.57  E-value=0.025  Score=59.89  Aligned_cols=26  Identities=35%  Similarity=0.407  Sum_probs=23.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ...+.|.||+|+||||++++||+.++
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCChHHHHHHHHHHhhc
Confidence            34588999999999999999999985

>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=93.57  E-value=0.031  Score=49.49  Aligned_cols=21  Identities=24%  Similarity=0.626  Sum_probs=19.5

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      -++|.|++|+|||+|+..+++
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            588999999999999999986

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=93.56  E-value=0.45  Score=44.53  Aligned_cols=62  Identities=16%  Similarity=0.193  Sum_probs=36.0

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccc--cCChHHH----------------HHHHHhhCCceEEEEec
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELAS--LRSNSDL----------------RRLLVSTGNRSILVIED  300 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~--~~~~~~l----------------~~ll~~~~~~~IL~iDE  300 (455)
                      .-+++|||.|+|||+.+-.++..+   |..++.+...-  -.+ ..+                .+++.....-.+|+|||
T Consensus        20 ~l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~D~Ryg-~~i~sr~G~~~~a~~i~~~~di~~~~~~~dvViIDE   98 (234)
T 2orv_A           20 QIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDRNTMEALPACLLRDVAQEALGVAVIGIDE   98 (234)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCCC------------CEEEEESSGGGGHHHHTTCSEEEESS
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecCCccch-HHHHhhcCCeeEEEecCCHHHHHHHhccCCEEEEEc
Confidence            347889999999997666665544   55555544211  001 111                11222334567999999


Q ss_pred             ccch
Q 047029          301 IDCS  304 (455)
Q Consensus       301 iD~l  304 (455)
                      +..+
T Consensus        99 aQF~  102 (234)
T 2orv_A           99 GQFF  102 (234)
T ss_dssp             GGGC
T ss_pred             hhhh
Confidence            9875

>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=93.56  E-value=0.022  Score=54.57  Aligned_cols=26  Identities=35%  Similarity=0.645  Sum_probs=22.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+-|.||.|+|||||++++++.+.
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~Gl~~   62 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTGYLS   62 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTSSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            34588999999999999999999773

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.55  E-value=0.029  Score=56.12  Aligned_cols=25  Identities=28%  Similarity=0.482  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||+|||||||+++||..+
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3458899999999999999999876

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=93.48  E-value=0.034  Score=58.41  Aligned_cols=29  Identities=28%  Similarity=0.305  Sum_probs=25.2

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |++...-++|.||||+|||+|++.++...
T Consensus       277 ~i~~G~i~~i~G~~GsGKSTLl~~l~g~~  305 (525)
T 1tf7_A          277 GFFKDSIILATGATGTGKTLLVSRFVENA  305 (525)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            55666679999999999999999999876

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=93.48  E-value=0.045  Score=47.47  Aligned_cols=24  Identities=21%  Similarity=0.304  Sum_probs=21.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ...+++.|++|+|||+|+.++.+.
T Consensus         8 ~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            8 PPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999763

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=93.44  E-value=0.12  Score=49.40  Aligned_cols=23  Identities=30%  Similarity=0.492  Sum_probs=20.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .-+.|.|+||+|||||+.++.+.
T Consensus         4 ~kI~lvG~~nvGKSTL~n~L~g~   26 (272)
T 3b1v_A            4 TEIALIGNPNSGKTSLFNLITGH   26 (272)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHCC
Confidence            35899999999999999999873

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=93.42  E-value=0.021  Score=51.02  Aligned_cols=25  Identities=28%  Similarity=0.416  Sum_probs=22.4

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +.+.|.||+|+|||||++.|++.+.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~   27 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILR   27 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3578999999999999999999874

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=93.41  E-value=0.046  Score=57.02  Aligned_cols=38  Identities=13%  Similarity=-0.027  Sum_probs=29.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~  274 (455)
                      |+++..-++|.|+||+|||+++..+|...    |.++..+++
T Consensus       238 Gl~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~  279 (503)
T 1q57_A          238 GARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAML  279 (503)
T ss_dssp             CCCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEES
T ss_pred             ccCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEec
Confidence            45555569999999999999999998765    456666654

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=93.40  E-value=0.06  Score=53.59  Aligned_cols=29  Identities=28%  Similarity=0.423  Sum_probs=25.2

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      .-+.|.||+|+|||||++.|++.+..+..
T Consensus        72 q~~gIiG~nGaGKTTLl~~I~g~~~~~~g  100 (347)
T 2obl_A           72 QRIGIFAGSGVGKSTLLGMICNGASADII  100 (347)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHSCCSEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCEE
Confidence            35899999999999999999999876543

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.38  E-value=0.036  Score=48.79  Aligned_cols=23  Identities=30%  Similarity=0.479  Sum_probs=20.8

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .-+.|.|++|+|||+|+.++++.
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999874

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=93.37  E-value=0.098  Score=49.56  Aligned_cols=22  Identities=41%  Similarity=0.634  Sum_probs=20.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      .+.|.|+||+|||||+.++.+.
T Consensus         3 kI~lvG~~n~GKSTL~n~L~g~   24 (256)
T 3iby_A            3 HALLIGNPNCGKTTLFNALTNA   24 (256)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            5889999999999999999875

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=93.35  E-value=0.033  Score=56.12  Aligned_cols=25  Identities=28%  Similarity=0.493  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||+|||||||.++||+.+
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCcHHHHHHHHHHcCC
Confidence            3458899999999999999999876

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=93.34  E-value=0.036  Score=58.23  Aligned_cols=29  Identities=28%  Similarity=0.410  Sum_probs=23.3

Q ss_pred             cCCCCceeEEECCCCCChHHHHHH--HHHHc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAA--MANYL  265 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~a--lA~~l  265 (455)
                      +++...-++|.||+|+|||||++.  ++..+
T Consensus        35 ~i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~   65 (525)
T 1tf7_A           35 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGII   65 (525)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            345566799999999999999999  45544

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=93.31  E-value=0.046  Score=48.39  Aligned_cols=24  Identities=33%  Similarity=0.385  Sum_probs=21.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ...+++.|++|+|||+|+.++.+.
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999754

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.26  E-value=0.043  Score=50.77  Aligned_cols=24  Identities=21%  Similarity=0.343  Sum_probs=21.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      .-+.|.|++|+||||+++.+++.+
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            347888999999999999999988

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.25  E-value=0.052  Score=50.64  Aligned_cols=26  Identities=27%  Similarity=0.300  Sum_probs=22.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      .-+.|.|++|+||||+++.+++.++.
T Consensus        22 ~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           22 MFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            34778899999999999999998754

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=93.18  E-value=0.026  Score=51.27  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      .-.+++.|++|+|||+|+.++.+
T Consensus        11 ~~ki~vvG~~~~GKSsli~~l~~   33 (218)
T 4djt_A           11 TYKICLIGDGGVGKTTYINRVLD   33 (218)
T ss_dssp             EEEEEEECCTTSSHHHHHCBCTT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            34689999999999999999884

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.16  E-value=0.032  Score=53.34  Aligned_cols=25  Identities=32%  Similarity=0.713  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||.|+|||||++++++.+
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458899999999999999999876

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=93.13  E-value=0.028  Score=56.10  Aligned_cols=25  Identities=24%  Similarity=0.638  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||+|||||||+++||+..
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCccHHHHHHHHHcCC
Confidence            3458899999999999999999876

>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA helicase, acetyltransferase, GCN5 acetyltransferase; HET: ACO ADP; 2.35A {Escherichia coli K12}

Probab=93.12  E-value=0.35  Score=52.22  Aligned_cols=61  Identities=16%  Similarity=0.174  Sum_probs=40.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHH-------------HhhCCceEEEEecccch
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLL-------------VSTGNRSILVIEDIDCS  304 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll-------------~~~~~~~IL~iDEiD~l  304 (455)
                      ..+|.|++|+|||+++..++..+...++ +......+-..+.+..             .......+|+|||+-++
T Consensus       194 ~~vlta~RGRGKSa~lG~~~a~~~~~~~-vtAP~~~a~~~l~~~~~~~i~~~~Pd~~~~~~~~~dlliVDEAAaI  267 (671)
T 2zpa_A          194 VAAVTAARGRGKSALAGQLISRIAGRAI-VTAPAKASTDVLAQFAGEKFRFIAPDALLASDEQADWLVVDEAAAI  267 (671)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHSSSCEE-EECSSCCSCHHHHHHHGGGCCBCCHHHHHHSCCCCSEEEEETGGGS
T ss_pred             eEEEecCCCCCHHHHHHHHHHHHHhCcE-EECCCHHHHHHHHHHhhCCeEEeCchhhhhCcccCCEEEEEchhcC
Confidence            4699999999999999999998865543 3333322223333221             22234579999999876

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=93.12  E-value=0.03  Score=54.38  Aligned_cols=25  Identities=28%  Similarity=0.416  Sum_probs=22.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||.|+|||||+++|++.+
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            3458899999999999999999876

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=93.11  E-value=0.082  Score=54.33  Aligned_cols=29  Identities=34%  Similarity=0.565  Sum_probs=24.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDI  269 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v  269 (455)
                      ..-+.|.||+|||||||++.||+....+.
T Consensus       157 Gq~~~IvG~sGsGKSTLl~~Iag~~~~~~  185 (438)
T 2dpy_A          157 GQRMGLFAGSGVGKSVLLGMMARYTRADV  185 (438)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHSCCSE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcccCCCe
Confidence            33588999999999999999999986554

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=93.10  E-value=0.17  Score=51.27  Aligned_cols=23  Identities=26%  Similarity=0.583  Sum_probs=20.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -.++.||||||||+|+..||+..
T Consensus       177 R~lIfg~~g~GKT~Ll~~Ia~~i  199 (427)
T 3l0o_A          177 RGMIVAPPKAGKTTILKEIANGI  199 (427)
T ss_dssp             EEEEEECTTCCHHHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHHHH
Confidence            48999999999999999999864

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=93.08  E-value=0.11  Score=47.30  Aligned_cols=25  Identities=28%  Similarity=0.477  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+++.|++|+|||+|+..++..+
T Consensus        38 ~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           38 VVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3568888999999999999999886

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.08  E-value=0.058  Score=53.43  Aligned_cols=25  Identities=36%  Similarity=0.495  Sum_probs=22.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||||+|||||++++++.+
T Consensus        55 g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           55 AIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhh
Confidence            3458899999999999999999876

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=93.07  E-value=0.05  Score=49.48  Aligned_cols=22  Identities=36%  Similarity=0.558  Sum_probs=20.0

Q ss_pred             ceeEEECCCCCChHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~  263 (455)
                      -.+++.|++|+|||+|+.++.+
T Consensus        35 ~ki~vvG~~~vGKSsli~~l~~   56 (214)
T 2j1l_A           35 VKVVLVGDGGCGKTSLLMVFAD   56 (214)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHc
Confidence            4699999999999999999975

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=93.02  E-value=0.047  Score=48.10  Aligned_cols=24  Identities=25%  Similarity=0.376  Sum_probs=21.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .-.+++.|++|+|||+|+.++.+.
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999999875

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=92.96  E-value=0.095  Score=52.60  Aligned_cols=34  Identities=15%  Similarity=0.184  Sum_probs=27.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      ..++++.||+|+|||++++.++..+   +..++.+|.
T Consensus        35 ~~~~~i~G~~G~GKs~~~~~~~~~~~~~~~~~~~~D~   71 (392)
T 4ag6_A           35 NSNWTILAKPGAGKSFTAKMLLLREYMQGSRVIIIDP   71 (392)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEES
T ss_pred             cCceEEEcCCCCCHHHHHHHHHHHHHHCCCEEEEEeC
Confidence            5579999999999999999998765   556666654

>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=92.95  E-value=0.088  Score=49.21  Aligned_cols=33  Identities=24%  Similarity=0.530  Sum_probs=26.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc--CCcEEEEec
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL--KFDIYDMEL  274 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l--~~~v~~l~~  274 (455)
                      ..+++.|.+|+||||++..+|..+  |..+..+++
T Consensus        15 ~i~~~~GkgGvGKTTl~~~La~~l~~g~~v~vvd~   49 (262)
T 1yrb_A           15 MIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNL   49 (262)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHTTTSCEEEEEC
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHCCCeEEEEeC
Confidence            457888999999999999999877  556655553

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.93  E-value=0.054  Score=47.28  Aligned_cols=24  Identities=21%  Similarity=0.374  Sum_probs=20.8

Q ss_pred             CCceeEEECCCCCChHHHHHHHHH
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      .+..+++.|++|+|||+|+.++.+
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            356799999999999999998873

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=92.92  E-value=0.049  Score=56.36  Aligned_cols=28  Identities=25%  Similarity=0.323  Sum_probs=23.7

Q ss_pred             CCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          238 KAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       238 ~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +....-+.|.||.|+|||||++.|++.+
T Consensus       135 i~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          135 NFEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SSSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            3344559999999999999999999976

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=92.89  E-value=0.089  Score=48.23  Aligned_cols=29  Identities=28%  Similarity=0.567  Sum_probs=24.5

Q ss_pred             eEEECCCCCChHHHHHHHHHHc--CCcEEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL--KFDIYDM  272 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l--~~~v~~l  272 (455)
                      +.|.|+.|+||||+++.+++.|  |.+++..
T Consensus         5 I~~EG~dGsGKsTq~~~L~~~L~~~~~v~~~   35 (205)
T 4hlc_A            5 ITFEGPEGSGKTTVINEVYHRLVKDYDVIMT   35 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTTTSCEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHCCCCEEEe
Confidence            6788999999999999999998  5565544

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=92.88  E-value=0.057  Score=47.09  Aligned_cols=23  Identities=17%  Similarity=0.310  Sum_probs=20.4

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+.++.+.
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            36899999999999999999864

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.88  E-value=0.052  Score=47.03  Aligned_cols=22  Identities=41%  Similarity=0.608  Sum_probs=19.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~  263 (455)
                      -.+++.|++|+|||+|+.++.+
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCS
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999999875

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=92.86  E-value=0.043  Score=55.56  Aligned_cols=25  Identities=36%  Similarity=0.538  Sum_probs=22.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||+|||||||+++||+.+
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTCS
T ss_pred             CCEEEEECCCCChHHHHHHHHhCCC
Confidence            4468999999999999999999865

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=92.84  E-value=0.044  Score=48.10  Aligned_cols=23  Identities=39%  Similarity=0.576  Sum_probs=20.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .-+.|.|+||+|||||+.++++.
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999999875

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=92.82  E-value=0.067  Score=52.51  Aligned_cols=29  Identities=24%  Similarity=0.343  Sum_probs=24.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      .+|++|.|++|+|||+++.++... |..++
T Consensus       144 g~~vl~~G~sG~GKSt~a~~l~~~-g~~lv  172 (314)
T 1ko7_A          144 GVGVLITGDSGIGKSETALELIKR-GHRLV  172 (314)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHhc-CCcee
Confidence            579999999999999999999875 54443

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=92.75  E-value=0.082  Score=55.90  Aligned_cols=32  Identities=25%  Similarity=0.327  Sum_probs=26.2

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC---CcEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK---FDIYDME  273 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~---~~v~~l~  273 (455)
                      .-++|.|+||+||||+++.++..++   .+++.++
T Consensus       373 ~~I~l~G~~GsGKSTia~~La~~L~~~G~~~~~ld  407 (546)
T 2gks_A          373 FCVWLTGLPCAGKSTIAEILATMLQARGRKVTLLD  407 (546)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             eEEEccCCCCCCHHHHHHHHHHHhhhcCCeEEEEC
Confidence            4588999999999999999999874   4555554

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=92.70  E-value=0.5  Score=46.73  Aligned_cols=21  Identities=24%  Similarity=0.460  Sum_probs=19.9

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      -+.+.|++|+|||||+.++.+
T Consensus        36 ~I~vvG~~~sGKSSLln~l~g   56 (360)
T 3t34_A           36 AIAVVGGQSSGKSSVLESIVG   56 (360)
T ss_dssp             EEEEECBTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            688999999999999999998

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=92.69  E-value=0.057  Score=49.13  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=19.6

Q ss_pred             ceeEEECCCCCChHHHHHH-HHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAA-MANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~a-lA~~  264 (455)
                      -.+++.|++|+|||+|+.+ +.+.
T Consensus        16 ~ki~v~G~~~~GKSsli~~~~~~~   39 (221)
T 3gj0_A           16 FKLVLVGDGGTGKTTFVKRHLTGE   39 (221)
T ss_dssp             EEEEEEECTTSSHHHHHTTBHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            3699999999999999999 5444

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=92.68  E-value=0.03  Score=50.40  Aligned_cols=25  Identities=24%  Similarity=0.266  Sum_probs=20.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.|++|+|||||++++++..
T Consensus        26 ~~~v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           26 GIEVAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC-
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4458999999999999999987543

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=92.67  E-value=0.028  Score=56.20  Aligned_cols=25  Identities=24%  Similarity=0.545  Sum_probs=22.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+.|.||+|||||||+++||+.+
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3458899999999999999999876

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=92.65  E-value=0.05  Score=51.77  Aligned_cols=23  Identities=26%  Similarity=0.557  Sum_probs=20.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ..+.|.|+||+|||||+.++.+.
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999875

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.62  E-value=0.055  Score=47.62  Aligned_cols=24  Identities=38%  Similarity=0.447  Sum_probs=21.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ...+++.|++|+|||+|+.++.+.
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcC
Confidence            346999999999999999999865

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=92.62  E-value=0.065  Score=46.64  Aligned_cols=24  Identities=17%  Similarity=0.214  Sum_probs=21.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .-.+++.|++|+|||+|+.++.+.
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            346999999999999999999864

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=92.58  E-value=0.043  Score=48.17  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      .+++.|++|+|||+|+.++.+.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4789999999999999999864

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=92.58  E-value=0.066  Score=47.47  Aligned_cols=22  Identities=27%  Similarity=0.440  Sum_probs=20.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      .+++.|++|+|||+|+..+.+.
T Consensus        23 ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           23 NLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            5999999999999999999864

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=92.56  E-value=0.11  Score=47.20  Aligned_cols=30  Identities=30%  Similarity=0.383  Sum_probs=25.2

Q ss_pred             eEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      +.|.|+.|+||||.++.+++.|   |.+++...
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~tr   35 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKR   35 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            4678999999999999999988   66776554

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=92.56  E-value=0.066  Score=47.80  Aligned_cols=25  Identities=28%  Similarity=0.414  Sum_probs=21.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ...+++.|++|+|||+|+.++.+.-
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3468999999999999999998753

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=92.54  E-value=0.051  Score=47.31  Aligned_cols=23  Identities=30%  Similarity=0.271  Sum_probs=20.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      -.+++.|++|+|||+|+..+.+.
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            36899999999999999999874

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=92.52  E-value=0.069  Score=47.32  Aligned_cols=22  Identities=23%  Similarity=0.218  Sum_probs=19.9

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -++|.|++|+|||+|+..+.+.
T Consensus        22 ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           22 KVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5999999999999999888764

>1knx_A Probable HPR(Ser) kinase/phosphatase; HPR kinase, HPR kinase/phosphatase, HPRK/P, P-loop, walker A BOX, catabolite repression; 2.50A {Mycoplasma pneumoniae} SCOP: c.98.2.1 c.91.1.2

Probab=92.51  E-value=0.051  Score=53.28  Aligned_cols=29  Identities=31%  Similarity=0.338  Sum_probs=23.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      .+|+||.||+|+|||++|.++.. -|..++
T Consensus       147 g~gvli~G~sG~GKStlal~l~~-~G~~lv  175 (312)
T 1knx_A          147 GVGVLLTGRSGIGKSECALDLIN-KNHLFV  175 (312)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHT-TTCEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH-cCCEEE
Confidence            57999999999999999998765 455444

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=92.51  E-value=0.052  Score=47.69  Aligned_cols=24  Identities=17%  Similarity=0.362  Sum_probs=21.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ...+++.|++|+|||+|+.++.+.
T Consensus        18 ~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           18 ELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            457999999999999999999853

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=92.40  E-value=0.07  Score=49.46  Aligned_cols=29  Identities=31%  Similarity=0.517  Sum_probs=23.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      -+.|.||.|+||||+++.+++. +..+...
T Consensus        22 ~i~i~G~~GsGKSTl~~~L~~~-~g~v~~~   50 (230)
T 2vp4_A           22 TVLIEGNIGSGKTTYLNHFEKY-KNDICLL   50 (230)
T ss_dssp             EEEEECSTTSCHHHHHHTTGGG-TTTEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhc-cCCeEEE
Confidence            4788899999999999999988 5445443

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=92.35  E-value=0.031  Score=54.69  Aligned_cols=28  Identities=25%  Similarity=0.487  Sum_probs=24.0

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcC
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ++..-+.|.||+|+|||||++.|++.+.
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~~  105 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFYD  105 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCCC
Confidence            3455689999999999999999999873

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=92.32  E-value=0.073  Score=47.21  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=21.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -.+++.|++|+|||+|+.++.+.-
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            469999999999999999998753

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=92.25  E-value=0.072  Score=54.55  Aligned_cols=22  Identities=36%  Similarity=0.498  Sum_probs=20.1

Q ss_pred             eEEECCCCCChHHHHHHHHHHc
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +.|.||+|+|||||+++|++..
T Consensus        45 vaLvG~nGaGKSTLln~L~G~~   66 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNTK   66 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTSC
T ss_pred             EEEECCCCCCHHHHHHHHhCcc
Confidence            7899999999999999999863

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=92.25  E-value=0.066  Score=53.74  Aligned_cols=25  Identities=32%  Similarity=0.425  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+-|.||+|+|||||+++|+..+
T Consensus        54 Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           54 GQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEEcCCCchHHHHHHHHhcCC
Confidence            3458899999999999999999876

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=92.24  E-value=0.19  Score=48.77  Aligned_cols=24  Identities=33%  Similarity=0.570  Sum_probs=20.5

Q ss_pred             Cce-eEEECCCCCChHHHHHHHHHH
Q 047029          241 KRG-YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg-~LL~GPpGTGKTsla~alA~~  264 (455)
                      +.| +.+.|+||+|||||+.++.+.
T Consensus         9 ~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            9 KVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            344 788999999999999999864

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=92.24  E-value=0.21  Score=48.39  Aligned_cols=24  Identities=33%  Similarity=0.476  Sum_probs=20.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      +.-++|.|+||+|||+|+.++.+.
T Consensus         3 ~~KI~lvG~~~vGKSSLi~~l~~~   26 (307)
T 3r7w_A            3 GSKLLLMGRSGSGKSSMRSIIFSN   26 (307)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346899999999999999997654

>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex, ATPase, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.20A {Drosophila melanogaster}

Probab=92.15  E-value=0.52  Score=47.80  Aligned_cols=51  Identities=12%  Similarity=0.191  Sum_probs=30.1

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC---CCceeEEECCCCCChHHH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKA---WKRGYLLYGPPGTGKSSL  257 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~---~~rg~LL~GPpGTGKTsl  257 (455)
                      .+|+++...+.+.+.+.+.  . +..+..++...++   ..+.+++.+|+|+|||..
T Consensus        56 ~~f~~~~l~~~l~~~l~~~--g-~~~pt~iQ~~ai~~i~~g~d~i~~a~TGsGKT~a  109 (434)
T 2db3_A           56 QHFTSADLRDIIIDNVNKS--G-YKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAA  109 (434)
T ss_dssp             CCGGGSCCCHHHHHHHHHT--T-CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHH
T ss_pred             CChhhcCCCHHHHHHHHHc--C-CCCCCHHHHHHHHHHhcCCCEEEECCCCCCchHH
Confidence            4799988877776665431  0 0111111111111   246899999999999973

>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=92.11  E-value=0.29  Score=50.91  Aligned_cols=61  Identities=20%  Similarity=0.241  Sum_probs=40.0

Q ss_pred             eeEEECCCCCChHHH-HHHHHHHcCCcEEEEeccccCChHHHHHHHHhhC-----CceEEEEecccc
Q 047029          243 GYLLYGPPGTGKSSL-IAAMANYLKFDIYDMELASLRSNSDLRRLLVSTG-----NRSILVIEDIDC  303 (455)
Q Consensus       243 g~LL~GPpGTGKTsl-a~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~-----~~~IL~iDEiD~  303 (455)
                      -.++.|++|||||+| +..|++..+.+++.+-+.--+..+++.++.....     .++++|.--.|.
T Consensus       165 R~~Ifg~~g~GKT~Lal~~I~~~~~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~  231 (507)
T 1fx0_A          165 RELIIGDRQTGKTAVATDTILNQQGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADS  231 (507)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTS
T ss_pred             EEEEecCCCCCccHHHHHHHHHhhcCCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCC
Confidence            389999999999999 6799999887755443332234455555544332     356666665554

---

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	455
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	4e-30
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	2e-29
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	2e-29
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	2e-19
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	3e-19
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	2e-13
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	8e-12
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	1e-11
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	4e-08
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	1e-07
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	5e-07
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	2e-06
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	8e-06
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	3e-04
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	7e-04
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	0.003
d1lw7a2	192	c.37.1.1 (A:220-411) Transcriptional regulator Nad	0.003

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

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]

 Score =  115 bits (289), Expect = 4e-30
 Identities = 53/210 (25%), Positives = 89/210 (42%), Gaps = 13/210 (6%)

Query: 205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANY 264
           TF  +A     K+ L + ++ F+K    +  +G    +G LL GPPG GK+ L  A+A  
Sbjct: 7   TFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 65

Query: 265 LKFDIYDMELASLRSN------SDLRRL--LVSTGNRSILVIEDIDCSIELENRQCGGGY 316
            +        +           + +R L          I+ I++ID ++    R  G G 
Sbjct: 66  ARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEID-AV-GRKRGSGVGG 123

Query: 317 DENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTP 376
             +  + TL+ LL  +DG         +++  TN  + LDPALLRPGR D  I +     
Sbjct: 124 GNDEREQTLNQLLVEMDGFEKDTA--IVVMAATNRPDILDPALLRPGRFDRQIAIDAPDV 181

Query: 377 GGFKILAFNYLKIKSHSMFDEIEELIKEVE 406
            G + +   + + K  +   ++  L K   
Sbjct: 182 KGREQILRIHARGKPLAEDVDLALLAKRTP 211

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 265

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]

 Score =  114 bits (285), Expect = 2e-29
 Identities = 47/263 (17%), Positives = 103/263 (39%), Gaps = 34/263 (12%)

Query: 205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANY 264
           T++ +     +K+ L + +   V+  + + + G    +G L YGPPG GK+ L  A+AN 
Sbjct: 5   TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE 64

Query: 265 LKFDIYDMELASLRS------NSDLRRL--LVSTGNRSILVIEDIDCSIELENRQCGGGY 316
            + +   ++   L +       +++R +          +L  +++D     + R    G 
Sbjct: 65  CQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDS--IAKARGGNIGD 122

Query: 317 DENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTP 376
               +   ++ +L  +DG+ +       I+  TN  + +DPA+LRPGR+D  I++     
Sbjct: 123 GGGAADRVINQILTEMDGMSTKKN--VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE 180

Query: 377 GGFKILAFNYLKIKSHSMFD---------------EIEELIKEVEVTPAEEFMKSEDADV 421
                +    L+    +                  ++ E+ +        E ++SE    
Sbjct: 181 KSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRR- 239

Query: 422 ALNGLVDFLLRKKEQTMKCNEEE 444
                 +   +     M+  E++
Sbjct: 240 ------ERERQTNPSAMEVEEDD 256

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

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]

 Score =  113 bits (284), Expect = 2e-29
 Identities = 50/211 (23%), Positives = 94/211 (44%), Gaps = 15/211 (7%)

Query: 205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANY 264
           TF  +A     K+ + + ++ +++    + ++G    +G L+ GPPGTGK+ L  A+A  
Sbjct: 10  TFADVAGCDEAKEEVAELVE-YLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE 68

Query: 265 LKFDIYDMELASLR------SNSDLRRL--LVSTGNRSILVIEDIDCSIELENRQCGGGY 316
            K   + +  +           S +R +          I+ I++ID ++    R  G G 
Sbjct: 69  AKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEID-AV-GRQRGAGLGG 126

Query: 317 DENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTP 376
             +  + TL+ +L  +DG   +  +  I++  TN  + LDPALLRPGR D  + +     
Sbjct: 127 GHDEREQTLNQMLVEMDGFEGN--EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDV 184

Query: 377 GG-FKILAFNYLKIKSHSMFDEIEELIKEVE 406
            G  +IL  +  ++      D    + +   
Sbjct: 185 RGREQILKVHMRRVPLAPDID-AAIIARGTP 214

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

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]

 Score = 87.0 bits (215), Expect = 2e-19
 Identities = 35/214 (16%), Positives = 64/214 (29%), Gaps = 33/214 (15%)

Query: 211 MDPVLKQALIDDLDRFVKRREFYS-------RVGKAWKRGYLLYGPPGTGKSSLIAAMAN 263
            D     A +  L   + + +                KR +L  GP  +GK++L AA+  
Sbjct: 117 ADIEEWMAGVAWLHCLLPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLE 176

Query: 264 YLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIEL-ENRQCGGGYDENNSQ 322
                  ++ L   R N +L   +    ++ ++V ED+  +     +   G G +     
Sbjct: 177 LCGGKALNVNLPLDRLNFELGVAI----DQFLVVFEDVKGTGGESRDLPSGQGINN---- 228

Query: 323 VTLSGLLNFVDGLWSSCGDE----------RIIVFTTNYKERLDPALLRPGRMDMHIHMS 372
             L  L +++DG      ++             + T N             R    I   
Sbjct: 229 --LDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMN---EYSVPKTLQARFVKQIDFR 283

Query: 373 YLTPGG--FKILAFNYLKIKSHSMFDEIEELIKE 404
                    +   F   K    S    +  LI  
Sbjct: 284 PKDYLKHCLERSEFLLEKRIIQSGIALLLMLIWY 317

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 258

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]

 Score = 85.1 bits (209), Expect = 3e-19
 Identities = 48/238 (20%), Positives = 85/238 (35%), Gaps = 28/238 (11%)

Query: 205 TFDTLA-MDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMAN 263
            +D +          + + ++  ++    +  +G    RG LLYGPPGTGK+ +  A+AN
Sbjct: 2   GYDDVGGCRKQ-LAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 60

Query: 264 YLKFDIYDMELASL------RSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYD 317
                 + +    +       S S+LR+        +  +I   +       R+   G  
Sbjct: 61  ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHG-- 118

Query: 318 ENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPG 377
               +  +S LL  +D          I++  TN    +DPAL R GR D  + +      
Sbjct: 119 -EVERRIVSQLLTLMD--GLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 175

Query: 378 GFK-ILAFNYLKIKSHSMFD--------------EIEELIKEVEVTPAEEFMKSEDAD 420
           G   IL  +   +K     D              ++  L  E  +    + M   D +
Sbjct: 176 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLE 233

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

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]

 Score = 68.5 bits (166), Expect = 2e-13
 Identities = 37/263 (14%), Positives = 81/263 (30%), Gaps = 34/263 (12%)

Query: 212 DPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYD 271
           D   +  L D+L+  ++ ++            +LL G PG+GK+SL +A+    + ++  
Sbjct: 8   DKQFENRLNDNLEELIQGKK-----AVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIV 62

Query: 272 MELASLRSNSDLRRLLVSTGNRSIL-----VIEDIDCSIELENRQCGGGYDENNSQVTLS 326
           ++  + +        LV    + ++         +  +I       G       +  T  
Sbjct: 63  IDNDTFKQQHPNFDELVKLYEKDVVKHVTPYSNRMTEAIISRLSDQGYNLVIEGTGRTTD 122

Query: 327 GLLNFVDGLWSS----------CGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTP 376
             +     L +                  + T    E +        R         +  
Sbjct: 123 VPIQTATMLQAKGYETKMYVMAVPKINSYLGTIERYETMYADDPMTARATPKQAHDIV-- 180

Query: 377 GGFKILAFNYLKIKSHSMFDEIEELIKEV----------EVTPAEEFMKSEDADVALNGL 426
              K L  N   +    +F +I    +E            ++P E   K  +  V+   +
Sbjct: 181 --VKNLPTNLETLHKTGLFSDIRLYNREGVKLYSSLETPSISPKETLEKELNRKVSGKEI 238

Query: 427 VDFLLRKKEQTMKCNEEENESLK 449
              L R +++ +    +E    K
Sbjct: 239 QPTLERIEQKMVLNKHQETPEFK 261

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 246

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]

 Score = 62.6 bits (151), Expect = 8e-12
 Identities = 28/213 (13%), Positives = 65/213 (30%), Gaps = 16/213 (7%)

Query: 217 QALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS 276
             ++DD +  V   +      +      LL GPP +GK++L A +A    F    +    
Sbjct: 19  TRVLDDGELLV---QQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPD 75

Query: 277 LRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGL---LNFVD 333
                       +         +     + +++ +    Y     + +   L   L  + 
Sbjct: 76  KMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLK 135

Query: 334 GLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHS 393
                   + +I+ TT+ K+ L    +        IH+  +   G ++     L+     
Sbjct: 136 KAPPQG-RKLLIIGTTSRKDVLQEMEML-NAFSTTIHVPNI-ATGEQL-----LEALELL 187

Query: 394 MFDEIEELIKEVEVTPAEEFMKSEDADVALNGL 426
              + +E     +    ++          L  +
Sbjct: 188 GNFKDKERTTIAQQVKGKKV--WIGIKKLLMLI 218

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

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]

 Score = 63.1 bits (153), Expect = 1e-11
 Identities = 23/182 (12%), Positives = 57/182 (31%), Gaps = 20/182 (10%)

Query: 216 KQALIDDLDRFVKRRE--FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFD--IYD 271
           +  L+D     V            +      ++ G   +GK+ L+ A+   L        
Sbjct: 96  RGWLVDLTGELVGCSPVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYAT 155

Query: 272 MELASLRS------NSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTL 325
           +      S      N  +  +  +     ++VI+ +   I         G          
Sbjct: 156 VRFGEPLSGYNTDFNVFVDDIARAMLQHRVIVIDSLKNVIGAAGGNTTSGGISR----GA 211

Query: 326 SGLLNFVDGLWSSCGDERIIVFTTN---YKERLDPALLRPGRMDMHIHMSYLTPGG-FKI 381
             LL+ +  + +S G   +++ + N     +++   +    R +    +      G +++
Sbjct: 212 FDLLSDIGAMAASRG--CVVIASLNPTSNDDKIVELVKEASRSNSTSLVISTDVDGEWQV 269

Query: 382 LA 383
           L 
Sbjct: 270 LT 271

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

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]

 Score = 51.9 bits (123), Expect = 4e-08
 Identities = 36/236 (15%), Positives = 73/236 (30%), Gaps = 19/236 (8%)

Query: 203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMA 262
           P T D    + + ++ L   L  +++     ++  K      LL+GPPG GK++L   +A
Sbjct: 5   PKTLD----EYIGQERLKQKLRVYLE----AAKARKEPLEHLLLFGPPGLGKTTLAHVIA 56

Query: 263 NYLKFDIYDMELASLRSNSDLRRLLV-STGNRSILVIEDIDCSIELENRQCGGGYDENNS 321
           + L  ++      ++    DL  +L  S     IL I++I               ++   
Sbjct: 57  HELGVNLRVTSGPAIEKPGDLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVM 116

Query: 322 QVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKI 381
            + +                   ++  T     +   LL    +  H+           +
Sbjct: 117 DIVIGQGPAARTIRLELPR--FTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGV 174

Query: 382 LAFNYLKIKSHSMFDEIEELIKEVEVTPAEEFMKSEDADVALNGLVDFLLRKKEQT 437
           +    L        +   E+ +    T          A      + DF     E+ 
Sbjct: 175 MRDARLL-GVRITEEAALEIGRRSRGTM-------RVAKRLFRRVRDFAQVAGEEV 222

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

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]

 Score = 50.2 bits (118), Expect = 1e-07
 Identities = 35/206 (16%), Positives = 68/206 (33%), Gaps = 6/206 (2%)

Query: 203 PSTFDTLAMDPVLKQALIDDLDRFVKRRE----FYSRVGKAWKRGYLLYGPPGTGKSSLI 258
           P+    +  +      L + L  +   ++       + G    R  +LYGPPG GK++  
Sbjct: 10  PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAA 69

Query: 259 AAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDE 318
             +A  L +DI +   + +RS +      V     ++ V+     + E +N         
Sbjct: 70  HLVAQELGYDILEQNASDVRSKTL-LNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVII 128

Query: 319 NNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGG 378
            +    +SG      G  +    +          ER  P +    R+ + I         
Sbjct: 129 MDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDRVCLDIQFRRPDANS 188

Query: 379 FKILAFNYLKIKSHSMFDE-IEELIK 403
            K         +   +    I+ LI+
Sbjct: 189 IKSRLMTIAIREKFKLDPNVIDRLIQ 214

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]} Length = 238

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]

 Score = 48.4 bits (114), Expect = 5e-07
 Identities = 44/237 (18%), Positives = 72/237 (30%), Gaps = 22/237 (9%)

Query: 203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMA 262
           P + D       +K+ L   L+    R E             LL GPPG GK++L   +A
Sbjct: 5   PKSLDEFIGQENVKKKLSLALEAAKMRGEVLD--------HVLLAGPPGLGKTTLAHIIA 56

Query: 263 NYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYD--ENN 320
           + L+ +I+      L    D+  +L S     +L I++I     L        Y   E+ 
Sbjct: 57  SELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEIH---RLNKAVEELLYSAIEDF 113

Query: 321 SQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFK 380
               + G       +        ++  TT       P   R G +      +       +
Sbjct: 114 QIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELK--E 171

Query: 381 ILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEFMKSEDADVALNGLVDFLLRKKEQT 437
           I+      +         E + K    TP         A      + D L   K   
Sbjct: 172 IIKRAASLMDVEIEDAAAEMIAKRSRGTPR-------IAIRLTKRVRDMLTVVKADR 221

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

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]

 Score = 47.1 bits (111), Expect = 2e-06
 Identities = 38/223 (17%), Positives = 77/223 (34%), Gaps = 32/223 (14%)

Query: 216 KQALIDDLDRFVKR-REFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL 274
           K+A+   L    +R +       +   +  L+ GP G GK+ +   +A         +E 
Sbjct: 23  KRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEA 82

Query: 275 ASLRSNSDLRRLLVSTG---------------NRSILVIEDIDCSIELENRQCGGGYDEN 319
                   + + + S                    I+ I++ID   ++  +    G D +
Sbjct: 83  TKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEID---KICKKGEYSGADVS 139

Query: 320 NSQVTLSGLLNFVDGLWSSCGD-----ERIIVFTTNYKERLDPALLRP---GRMDMHIHM 371
              V    LL  V+G   S        + I+   +   +   P+ L P   GR+ + + +
Sbjct: 140 REGV-QRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIRVEL 198

Query: 372 SYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEFM 414
           + L+   F+      L     S+ ++ + L+    V  A    
Sbjct: 199 TALSAADFE----RILTEPHASLTEQYKALMATEGVNIAFTTD 237

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]} Length = 283

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]

 Score = 45.1 bits (105), Expect = 8e-06
 Identities = 25/186 (13%), Positives = 55/186 (29%), Gaps = 11/186 (5%)

Query: 220 IDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS 279
            D+   F  R +   ++        L+ G   TGKSS+I    N L      ++L     
Sbjct: 8   KDNRKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEE 67

Query: 280 NSD------LRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVD 333
            +       L  L          +   +     ++     G   + N           + 
Sbjct: 68  RNYISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLL 127

Query: 334 GLWSSCGDERIIVFTTNYKERLDPALLR-----PGRMDMHIHMSYLTPGGFKILAFNYLK 388
             +     + +I+     +E +    +          D    + ++  G    L ++YL+
Sbjct: 128 ESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLR 187

Query: 389 IKSHSM 394
           ++    
Sbjct: 188 VEDPES 193

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

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]

 Score = 40.5 bits (93), Expect = 3e-04
 Identities = 9/47 (19%), Positives = 13/47 (27%)

Query: 220 IDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK 266
            + L R    R             Y   G  G GK++L       + 
Sbjct: 25  AEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVS 71

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

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]

 Score = 38.6 bits (88), Expect = 7e-04
 Identities = 27/193 (13%), Positives = 48/193 (24%), Gaps = 14/193 (7%)

Query: 203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMA 262
           P + + L       + L + L     +     R         LLYGP GTGK +   A+ 
Sbjct: 7   PKSLNAL----SHNEELTNFLKSLSDQ----PRDLPH----LLLYGPNGTGKKTRCMALL 54

Query: 263 NYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQ 322
             +           +R         +     S     +I  S    N        E   +
Sbjct: 55  ESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNND--RIVIQELLKE 112

Query: 323 VTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKIL 382
           V     ++F D         + ++         D        M+ +     L      + 
Sbjct: 113 VAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMS 172

Query: 383 AFNYLKIKSHSMF 395
                      + 
Sbjct: 173 PIIAPIKSQCLLI 185

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

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]

 Score = 37.1 bits (84), Expect = 0.003
 Identities = 31/250 (12%), Positives = 60/250 (24%), Gaps = 25/250 (10%)

Query: 195 ADAINLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGK 254
            D            L      ++  +  LD  +       R          L G PGTGK
Sbjct: 4   VDDSVFSPSYVPKRL----PHREQQLQQLDILLGNWL---RNPGHHYPRATLLGRPGTGK 56

Query: 255 SSLIAAMANYLKFDI--------YDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIE 306
           +  +  +    K             +         ++ R L     R  L  ++    + 
Sbjct: 57  TVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLV 116

Query: 307 LENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER------IIVFTTNYKERLDPALL 360
              R+                       +      ++       +V   +    L+    
Sbjct: 117 EHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDP 176

Query: 361 RPG--RMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEF--MKS 416
                     I  S  T      +  +  K          + L    ++T A+       
Sbjct: 177 STRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNR 236

Query: 417 EDADVALNGL 426
            DA +A++ L
Sbjct: 237 GDARLAIDIL 246

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]} Length = 192

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]

 Score = 36.6 bits (83), Expect = 0.003
 Identities = 23/184 (12%), Positives = 44/184 (23%), Gaps = 14/184 (7%)

Query: 230 REFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVS 289
           R F+++          + G   +GKS L+  +A                           
Sbjct: 3   RPFFAKT-------VAILGGESSGKSVLVNKLAAVFNTTSAWEYGREFVFEKLGGDEQAM 55

Query: 290 TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT 349
             +    +       I+   R        +   +T        +G      D  I  +  
Sbjct: 56  QYSDYPQMALGHQRYIDYAVRHSHKIAFIDTDFITTQAFCIQYEGKAHPFLDSMIKEYPF 115

Query: 350 NYKERLDPAL-------LRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELI 402
           +    L              G          L           Y++I+S S  D   ++ 
Sbjct: 116 DVTILLKNNTEWVDDGLRSLGSQKQRQQFQQLLKKLLDKYKVPYIEIESPSYLDRYNQVK 175

Query: 403 KEVE 406
             +E
Sbjct: 176 AVIE 179

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	455
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	100.0
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	100.0
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.88
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.88
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.87
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.85
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.82
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.81
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.77
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.74
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.74
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.71
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.67
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.66
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.61
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.51
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.46
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.46
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.46
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.43
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.41
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.4
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.37
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.36
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.35
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.34
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.17
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.98
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.98
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.92
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.9
d1tuea_	205	Replication protein E1 helicase domain {Human papi	98.29
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.21
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.2
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	98.2
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	98.06
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.05
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	98.0
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.98
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.91
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.9
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.85
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.8
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.79
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.78
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.73
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	97.72
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.6
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.6
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.57
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.55
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.55
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.52
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.49
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.49
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.46
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.42
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.41
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.38
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.38
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.37
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.37
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.37
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.37
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.37
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.36
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	97.36
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.34
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.31
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.29
d1okkd2	207	GTPase domain of the signal recognition particle r	97.27
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.22
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.2
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.2
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	97.14
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.13
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	97.12
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.1
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.07
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.99
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.95
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.93
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	96.92
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.92
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.91
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.84
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.83
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.82
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.77
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.75
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.75
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.73
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.72
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.7
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.7
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.68
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	96.68
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.59
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.58
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.58
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	96.55
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.54
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.4
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.38
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.36
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.31
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.25
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.25
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.24
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.23
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	96.22
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	96.14
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	96.08
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.03
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.02
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	96.02
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	96.01
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	96.01
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.95
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.93
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.91
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.9
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.86
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.8
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.8
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	95.79
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.78
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.77
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.74
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	95.72
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.69
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.66
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.64
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.64
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.64
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.63
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.62
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.6
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.43
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.42
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	95.32
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.31
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.3
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.21
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	95.2
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.17
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.14
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.13
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	95.13
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.13
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.11
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.1
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.1
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.04
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	95.01
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.97
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.92
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.86
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.77
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.75
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	94.72
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.67
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.65
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.63
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	94.61
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.59
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.59
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.55
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	94.51
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	94.31
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	94.3
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	94.3
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.24
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.2
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.12
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.04
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.02
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.95
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	93.88
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.86
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.79
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.74
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	93.73
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.68
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	93.65
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	93.6
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.59
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.57
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.55
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.47
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	93.46
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.42
d1g2912	240	Maltose transport protein MalK, N-terminal domain	93.38
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.36
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.27
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.22
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.14
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	93.12
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.11
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.04
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.83
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.65
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.58
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.57
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	92.46
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	92.45
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	92.41
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.16
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.06
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.0
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	92.0
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	92.0
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	91.94
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	91.91
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	91.9
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	91.84
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.77
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	91.76
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.72
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	91.7
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	91.61
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	91.35
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.33
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	91.25
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	91.2
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	91.11
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	91.08
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	90.97
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	90.47
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	90.15
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	89.61
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.23
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	89.21
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	88.71
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	88.63
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	88.45
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	88.43
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	88.01
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	87.94
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	87.46
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	87.41
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	87.36
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	87.03
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	86.94
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	86.85
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	86.71
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	86.49
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	86.47
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	85.15
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	84.08
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	83.91
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	83.35
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	82.61
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	82.58
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	82.18
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	82.03
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	82.02
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	81.97
d1ry6a_	330	Kinesin {Malaria parasite (Plasmodium falciparum)	81.97
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	81.63
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	81.52
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	80.82
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	80.36
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	80.24

>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=100.00  E-value=4e-36  Score=289.30  Aligned_cols=186  Identities=25%  Similarity=0.402  Sum_probs=154.9

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC---
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR---  278 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~---  278 (455)
                      .+.||++++|.+++|++|.+.+ .|+.+++.|+++|..+++|+|||||||||||++|+++|++++.+++.++++.+.   
T Consensus         7 ~~~t~~Di~Gl~~~k~~l~e~v-~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~~   85 (256)
T d1lv7a_           7 IKTTFADVAGCDEAKEEVAELV-EYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMF   85 (256)
T ss_dssp             SCCCGGGSCSCHHHHHHTHHHH-HHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSC
T ss_pred             CCCCHHHHhchHHHHHHHHHHH-HHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhcc
Confidence            3569999999999999998876 478999999999999999999999999999999999999999999999998873   


Q ss_pred             ---ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          279 ---SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       279 ---~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                         +...++++|..+  .+||||||||+|.++.  .+..............++.||+.||++...  .+++||+|||+++
T Consensus        86 ~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~--~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~--~~v~vIatTn~~~  161 (256)
T d1lv7a_          86 VGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGR--QRGAGLGGGHDEREQTLNQMLVEMDGFEGN--EGIIVIAATNRPD  161 (256)
T ss_dssp             CCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTC--CCSTTSCCTTCHHHHHHHHHHHHHHTCCSS--SCEEEEEEESCTT
T ss_pred             hhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCc--cCCCCCCCCcHHHHHHHHHHHHHhhCCCCC--CCEEEEEeCCCcc
Confidence               457788988665  5789999999999865  222222222334456788999999998654  5699999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCC
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSH  392 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~  392 (455)
                      .|||+++||||||.+|+++.|+.++|..|++.++.....
T Consensus       162 ~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~  200 (256)
T d1lv7a_         162 VLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPL  200 (256)
T ss_dssp             TSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCB
T ss_pred             cCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCc
Confidence            999999999999999999999999999999999976543

>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=100.00  E-value=3.2e-35  Score=281.67  Aligned_cols=202  Identities=26%  Similarity=0.342  Sum_probs=162.0

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC---
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR---  278 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~---  278 (455)
                      ++.+|++|+|.+++|++|.+.+ .++.+++.|.++|..+++|+|||||||||||++|+++|++++.+++.++++.+.   
T Consensus         4 p~~~~~di~G~~~~k~~l~~~i-~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~   82 (247)
T d1ixza_           4 PKVTFKDVAGAEEAKEELKEIV-EFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMF   82 (247)
T ss_dssp             CSCCGGGCCSCHHHHHHHHHHH-HHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSC
T ss_pred             CCCcHHHHccHHHHHHHHHHHH-HHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhcc
Confidence            4569999999999999997654 579999999999999999999999999999999999999999999999988762   


Q ss_pred             ---ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          279 ---SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       279 ---~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                         +...++++|..+  ..||||||||||.++..  +.......+......++.||+.||++...  .+++||+|||+++
T Consensus        83 ~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~--r~~~~~~~~~~~~~~~~~ll~~~d~~~~~--~~vivi~tTn~~~  158 (247)
T d1ixza_          83 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRK--RGSGVGGGNDEREQTLNQLLVEMDGFEKD--TAIVVMAATNRPD  158 (247)
T ss_dssp             TTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC-----------CHHHHHHHHHHHHHHHTCCTT--CCEEEEEEESCGG
T ss_pred             ccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCcc--CCCCCCCCcHHHHHHHHHHHHHhhCCCCC--CCEEEEEeCCCcc
Confidence               346688888765  47899999999998652  22222222334556789999999998654  5689999999999


Q ss_pred             CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCC---chHHHHHhhccccCchh
Q 047029          354 RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHS---MFDEIEELIKEVEVTPA  410 (455)
Q Consensus       354 ~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~---l~~ei~~ll~~~~~tpa  410 (455)
                      .||++++||||||.+|+|+.|+.++|++|++.++......   ..+++.+.+.+  ++++
T Consensus       159 ~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~~~~la~~t~g--~s~~  216 (247)
T d1ixza_         159 ILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPG--FVGA  216 (247)
T ss_dssp             GSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTT--CCHH
T ss_pred             ccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccCHHHHHHHCCC--CCHH
Confidence            9999999999999999999999999999999999754322   23444444432  4554

>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=100.00  E-value=3e-34  Score=276.59  Aligned_cols=203  Identities=22%  Similarity=0.306  Sum_probs=167.9

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCC----
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRS----  279 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~----  279 (455)
                      .+|++|+|.+++|++|.+.+..++.+++.|++.|+++++|+|||||||||||++++++|++++.+++.++++.+.+    
T Consensus         1 ~~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g   80 (258)
T d1e32a2           1 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAG   80 (258)
T ss_dssp             CCGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTT
T ss_pred             CChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcccccc
Confidence            3799999999999999999999999999999999999999999999999999999999999999999999887632    


Q ss_pred             --hHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCC
Q 047029          280 --NSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERL  355 (455)
Q Consensus       280 --~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~L  355 (455)
                        ...++++|..+  ..||||+|||+|.++..+...     ........++.+++.+++....  .+++||+|||+++.+
T Consensus        81 ~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~-----~~~~~~~~~~~~~~~~~~~~~~--~~vlvi~tTn~~~~l  153 (258)
T d1e32a2          81 ESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT-----HGEVERRIVSQLLTLMDGLKQR--AHVIVMAATNRPNSI  153 (258)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHC-----CCTTHHHHHHHHHHHHHTCCCS--SCEEEEEEESCGGGS
T ss_pred             cHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCC-----CCchHHHHHHHhcccccccccc--CCccEEEeCCCcccc
Confidence              46677777554  589999999999998643321     1233456778888888887554  569999999999999


Q ss_pred             CccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCC---chHHHHHhhccccCchh--HHHhc
Q 047029          356 DPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHS---MFDEIEELIKEVEVTPA--EEFMK  415 (455)
Q Consensus       356 d~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~---l~~ei~~ll~~~~~tpa--~~l~~  415 (455)
                      |||++||||||.+|++++|+.++|+.|++.+++.....   ..+++.+..++  ++++  ..++.
T Consensus       154 d~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G--~s~adl~~lv~  216 (258)
T d1e32a2         154 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHG--HVGADLAALCS  216 (258)
T ss_dssp             CGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCCHHHHHHHCTT--CCHHHHHHHHH
T ss_pred             chhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccchhhhhhcccC--CCHHHHHHHHH
Confidence            99999999999999999999999999999999754322   23445444443  6666  45544

>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=100.00  E-value=9.9e-35  Score=281.10  Aligned_cols=207  Identities=21%  Similarity=0.336  Sum_probs=165.3

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC----
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR----  278 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~----  278 (455)
                      ..||++|+|.+++|++|.+.+..++.+++.|.+.|.++++|+|||||||||||++++++|++++.+++.++++.+.    
T Consensus         3 ~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~   82 (265)
T d1r7ra3           3 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWF   82 (265)
T ss_dssp             CCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCT
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccc
Confidence            3599999999999999999999999999999999999999999999999999999999999999999999987652    


Q ss_pred             --ChHHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC
Q 047029          279 --SNSDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER  354 (455)
Q Consensus       279 --~~~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~  354 (455)
                        ....++.+|..+  ..||||+|||+|.++..+..  ...........+++.|++.||++...  .+++||+|||+++.
T Consensus        83 ~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~--~~~~~~~~~~~~~~~ll~~l~~~~~~--~~v~vi~ttn~~~~  158 (265)
T d1r7ra3          83 GESEANVREIFDKARQAAPCVLFFDELDSIAKARGG--NIGDGGGAADRVINQILTEMDGMSTK--KNVFIIGATNRPDI  158 (265)
T ss_dssp             TTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHH--CCCTTHHHHHHHHHHHHHTCC--------CCEEEECCBSCTT
T ss_pred             cchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCC--cCCCCcHHHHHHHHHHHHHhhCcCCC--CCEEEEEeCCCchh
Confidence              346677777543  57999999999999863322  22222233456788999999998765  45899999999999


Q ss_pred             CCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccC---CCchHHHHHhhccccCchh--HHHhc
Q 047029          355 LDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKS---HSMFDEIEELIKEVEVTPA--EEFMK  415 (455)
Q Consensus       355 Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~---~~l~~ei~~ll~~~~~tpa--~~l~~  415 (455)
                      |||+++|||||+.+|++++|+.++|..|++.++....   ....+++.....+  ++++  ..+++
T Consensus       159 ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~l~~la~~t~g--~s~~di~~lv~  222 (265)
T d1r7ra3         159 IDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNG--FSGADLTEICQ  222 (265)
T ss_dssp             TSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCCCHHHHHHHCS--SCCHHHHHHHH
T ss_pred             CCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhhHHHHHhcCCC--CCHHHHHHHHH
Confidence            9999999999999999999999999999999987531   2233556555554  5555  44443

>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=99.88  E-value=1.9e-22  Score=192.16  Aligned_cols=157  Identities=20%  Similarity=0.259  Sum_probs=116.8

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC---C----h
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR---S----N  280 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~---~----~  280 (455)
                      -+++..+..+.+++++..++....   .-...+++|+|||||||||||++|+++|++++.+++.+++++..   .    .
T Consensus        10 ~~i~~~~~i~~i~~~~~~~~~~~~---~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~~~   86 (246)
T d1d2na_          10 GIIKWGDPVTRVLDDGELLVQQTK---NSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKC   86 (246)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHH---HCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHH
T ss_pred             CCcCcCHHHHHHHHHHHHHHHHHh---ccCCCCCeEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccchh
Confidence            355555667788888887776532   22234578999999999999999999999999999999887542   1    2


Q ss_pred             HHHHHHHHhh--CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCcc
Q 047029          281 SDLRRLLVST--GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPA  358 (455)
Q Consensus       281 ~~l~~ll~~~--~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~a  358 (455)
                      ..++++|..+  .+||||||||||.+.+.+.      .+.......++.|+..+|+.... +.+++||+|||+++.+|++
T Consensus        87 ~~i~~if~~A~~~~p~il~iDEid~l~~~~~------~~~~~~~~~~~~ll~~l~~~~~~-~~~v~vi~tTn~~~~ld~~  159 (246)
T d1d2na_          87 QAMKKIFDDAYKSQLSCVVVDDIERLLDYVP------IGPRFSNLVLQALLVLLKKAPPQ-GRKLLIIGTTSRKDVLQEM  159 (246)
T ss_dssp             HHHHHHHHHHHTSSEEEEEECCHHHHTTCBT------TTTBCCHHHHHHHHHHTTCCCST-TCEEEEEEEESCHHHHHHT
T ss_pred             hhhhhhhhhhhhcccceeehhhhhhHhhhcc------cccchhHHHHHHHHHHhcCCCcc-ccceeeeeccCChhhccch
Confidence            4577777655  4689999999999865211      11223456778899999988543 4568899999999999876


Q ss_pred             ccCCCceeEEEEeCCCC
Q 047029          359 LLRPGRMDMHIHMSYLT  375 (455)
Q Consensus       359 llRpGR~d~~I~~~~p~  375 (455)
                      .++ +||+.+|++|.+.
T Consensus       160 ~~~-~rF~~~i~~P~~~  175 (246)
T d1d2na_         160 EML-NAFSTTIHVPNIA  175 (246)
T ss_dssp             TCT-TTSSEEEECCCEE
T ss_pred             hhc-CccceEEecCCch
Confidence            554 5999999986543

>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=99.88  E-value=2.4e-21  Score=182.12  Aligned_cols=173  Identities=20%  Similarity=0.194  Sum_probs=136.9

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN  280 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~  280 (455)
                      -.|.+|++++|+++++++|...+..+..+        ..+..++|||||||||||++|+++|++++.+++.++.......
T Consensus         3 ~RP~~~~divGqe~~~~~l~~~i~~~~~~--------~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~~   74 (238)
T d1in4a2           3 LRPKSLDEFIGQENVKKKLSLALEAAKMR--------GEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQ   74 (238)
T ss_dssp             TSCSSGGGCCSCHHHHHHHHHHHHHHHHH--------TCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSH
T ss_pred             CCCCcHHHcCChHHHHHHHHHHHHHHHhc--------CCCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccccH
Confidence            35889999999999999998888754432        2234589999999999999999999999999999998888888


Q ss_pred             HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc--------------cccCCCceEEE
Q 047029          281 SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL--------------WSSCGDERIIV  346 (455)
Q Consensus       281 ~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~--------------~~~~~~~~ivI  346 (455)
                      ..+...+.....+++++|||+|.+....                ...++..++..              ......+.++|
T Consensus        75 ~~~~~~~~~~~~~~~~~ide~~~~~~~~----------------~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I  138 (238)
T d1in4a2          75 GDMAAILTSLERGDVLFIDEIHRLNKAV----------------EELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLV  138 (238)
T ss_dssp             HHHHHHHHHCCTTCEEEEETGGGCCHHH----------------HHHHHHHHHTSCCCC---------------CCCEEE
T ss_pred             HHHHHHHHhhccCCchHHHHHHHhhhHH----------------HhhcccceeeeeeeeeecCcccccccccCCCCeEEE
Confidence            8888888888889999999999874311                11122222110              00012457899


Q ss_pred             EEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHH
Q 047029          347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIE  399 (455)
Q Consensus       347 ~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~  399 (455)
                      ++||++..+++++++  ||+..+.++.|+.+++..+++.+.........++..
T Consensus       139 ~at~~~~~~~~~~~~--r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l  189 (238)
T d1in4a2         139 GATTRSGLLSSPLRS--RFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAA  189 (238)
T ss_dssp             EEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHH
T ss_pred             EecCCCcccccccee--eeeEEEEecCCCHHHHHHHHHHhhhhccchhhHHHH
Confidence            999999999999999  999999999999999999999998887776666543

>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=99.87  E-value=1.6e-25  Score=220.15  Aligned_cols=153  Identities=12%  Similarity=0.093  Sum_probs=118.9

Q ss_pred             HHHHhhhcCCCCceeEE-ECCCCCChHHHHHHHHHHcC--CcEEEEeccccC------ChHHHHHHHHhhCCceEEEEec
Q 047029          230 REFYSRVGKAWKRGYLL-YGPPGTGKSSLIAAMANYLK--FDIYDMELASLR------SNSDLRRLLVSTGNRSILVIED  300 (455)
Q Consensus       230 ~~~~~~~g~~~~rg~LL-~GPpGTGKTsla~alA~~l~--~~v~~l~~~~~~------~~~~l~~ll~~~~~~~IL~iDE  300 (455)
                      |..++.+|...++|++| |||||||||.+|+++|++++  .+++.++.+++.      .+..++++|.....++||||||
T Consensus       111 ~~~~~~~~~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~~~ilf~DE  190 (321)
T d1w44a_         111 PVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHRVIVIDS  190 (321)
T ss_dssp             CEEEEETTEEEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCSEEEEEC
T ss_pred             hHHHHHhhcccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhhccEEEeeh
Confidence            44566677677778655 89999999999999999986  678899988863      4688999998888899999999


Q ss_pred             ccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCC---CCCCccccCCCceeEEEEeCCCCHH
Q 047029          301 IDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYK---ERLDPALLRPGRMDMHIHMSYLTPG  377 (455)
Q Consensus       301 iD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~---~~Ld~allRpGR~d~~I~~~~p~~~  377 (455)
                      ||.+...+...    .......+++++||..|||+.+.  .+++||+|||+.   +.||++++||||||.+|++++|+.+
T Consensus       191 id~~~~~r~~~----~~~~~~~r~v~~lL~e~dg~~~~--~~v~viaatN~~~~~~~i~~~~~r~~Rf~~~v~v~~pd~~  264 (321)
T d1w44a_         191 LKNVIGAAGGN----TTSGGISRGAFDLLSDIGAMAAS--RGCVVIASLNPTSNDDKIVELVKEASRSNSTSLVISTDVD  264 (321)
T ss_dssp             CTTTC---------------CCHHHHHHHHHHHHHHHH--HTCEEEEECCCCCCCHHHHHHHHHHHHHSCSEEEEECSST
T ss_pred             hhhhccccccC----CCCCcchhhhhhhhhhccccccC--CCeEEEEeCCCcccccchhhhhhccCcccceeecCCCChH
Confidence            99997633221    12233457899999999999776  569999999952   3356667899999999999999999


Q ss_pred             HHHHHHHHhhc
Q 047029          378 GFKILAFNYLK  388 (455)
Q Consensus       378 ~~~~L~~~~l~  388 (455)
                      .+.++++.+..
T Consensus       265 ~r~~il~~~~~  275 (321)
T d1w44a_         265 GEWQVLTRTGE  275 (321)
T ss_dssp             TEEEEEEECBT
T ss_pred             HHHHHHHHhcc
Confidence            99888876643

>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=99.85  E-value=8.5e-20  Score=171.64  Aligned_cols=172  Identities=22%  Similarity=0.262  Sum_probs=128.6

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChH
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNS  281 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~  281 (455)
                      .|.+|++++|++++++++...+..+.        .+..++.++|||||||||||++|+++|+++++++..++.+......
T Consensus         4 RP~~~ddivGq~~~~~~L~~~i~~~~--------~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~~   75 (239)
T d1ixsb2           4 RPKTLDEYIGQERLKQKLRVYLEAAK--------ARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPG   75 (239)
T ss_dssp             CCCSGGGSCSCHHHHHHHHHHHHHHT--------TSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSHH
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHH--------hcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccch
Confidence            58999999999999999877765322        1233467999999999999999999999999999999988876655


Q ss_pred             HHHHHHHhh-CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc--------------cccCCCceEEE
Q 047029          282 DLRRLLVST-GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL--------------WSSCGDERIIV  346 (455)
Q Consensus       282 ~l~~ll~~~-~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~--------------~~~~~~~~ivI  346 (455)
                      .....+... .+++|++|||+|.+..                .....++..++..              ........++|
T Consensus        76 ~~~~~~~~~~~~~~i~~iDe~~~~~~----------------~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i  139 (239)
T d1ixsb2          76 DLAAILANSLEEGDILFIDEIHRLSR----------------QAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLI  139 (239)
T ss_dssp             HHHHHHHTTCCTTCEEEEETGGGCCH----------------HHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEE
T ss_pred             hhHHHHHhhccCCCeeeeecccccch----------------hHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEE
Confidence            555555443 3568999999998743                1112233333210              00112456788


Q ss_pred             EEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHH
Q 047029          347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIE  399 (455)
Q Consensus       347 ~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~  399 (455)
                      ++||++...+++.++  |+...+.+..|+.+++..++.+.+..+.....++..
T Consensus       140 ~~~~~~~~~~~~~l~--~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~~~~l  190 (239)
T d1ixsb2         140 GATTRPGLITAPLLS--RFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAA  190 (239)
T ss_dssp             EEESCCSSCSCGGGG--GCSEEEECCCCCHHHHHHHHHHHHGGGCCCBCHHHH
T ss_pred             eeccCcccccchhhc--ccceeeEeeccChhhhhHHHHHHHHHhCCccchHHH
Confidence            899999999999999  888899999999999999999888877655554433

>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=99.82  E-value=1.7e-20  Score=184.18  Aligned_cols=174  Identities=19%  Similarity=0.258  Sum_probs=123.3

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhc-CCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccC--------
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVG-KAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLR--------  278 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g-~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~--------  278 (455)
                      .++|+++.|+.|...+...+++........ ..+++|+||+||||||||.||+++|+.++.+++.++++.+.        
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~   94 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   94 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGS
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeee
Confidence            378999999999887755444432222211 12568999999999999999999999999999999998763        


Q ss_pred             ChHHHHHHHHhhC-------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCC------CceEE
Q 047029          279 SNSDLRRLLVSTG-------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCG------DERII  345 (455)
Q Consensus       279 ~~~~l~~ll~~~~-------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~------~~~iv  345 (455)
                      ....++.++....       ++|||||||||.+.+   +.... ..+......++.||..+||......      .++++
T Consensus        95 ~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~---~~~~~-~~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~ilf  170 (309)
T d1ofha_          95 VDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICK---KGEYS-GADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILF  170 (309)
T ss_dssp             TTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSC---CSSCC-SSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEE
T ss_pred             ccccccccchhhhcccccccCCceEEehhhhhhhh---hccCc-ccchhhhHHHHHhhHHhcCCEEecCCeEEEccceeE
Confidence            3356777776553       379999999999854   11110 0111122356779999998643322      23445


Q ss_pred             EEE----cCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhh
Q 047029          346 VFT----TNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       346 I~T----TN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      |++    +|.+..++|+++.  ||+..+.++.|+..++++++..+.
T Consensus       171 i~~ga~~~~~~~~~~p~l~~--R~~~~i~~~~~~~~~~~~Il~~~~  214 (309)
T d1ofha_         171 IASGAFQVARPSDLIPELQG--RLPIRVELTALSAADFERILTEPH  214 (309)
T ss_dssp             EEEECCSSSCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHSST
T ss_pred             EeccchhhcCcccchhhhhh--hhheeeeccCCCHHHHHHHHHHHH
Confidence            555    4566777777775  999999999999999999987543

>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=99.81  E-value=3.2e-19  Score=168.47  Aligned_cols=173  Identities=17%  Similarity=0.292  Sum_probs=123.5

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHH----HHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRRE----FYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELAS  276 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~----~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~  276 (455)
                      ..|.+|++++|+++.+++|.+.+..+.....    .+...|..+.+++|||||||||||++|+++|++++.+++.++.+.
T Consensus         8 y~P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~   87 (253)
T d1sxja2           8 YAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASD   87 (253)
T ss_dssp             TCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTS
T ss_pred             cCCCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhcccccc
Confidence            5689999999999999999999987665432    123445666789999999999999999999999999999999988


Q ss_pred             cCChHHHHHHHHhh--------------------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc
Q 047029          277 LRSNSDLRRLLVST--------------------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW  336 (455)
Q Consensus       277 ~~~~~~l~~ll~~~--------------------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~  336 (455)
                      ..+...+...+...                    ....++++||+|.+..             ..+..+..++...... 
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~-------------~~~~~~~~~~~~~~~~-  153 (253)
T d1sxja2          88 VRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSG-------------GDRGGVGQLAQFCRKT-  153 (253)
T ss_dssp             CCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCT-------------TSTTHHHHHHHHHHHC-
T ss_pred             chhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeecccccc-------------chhhhhHHHhhhhccc-
Confidence            77665555443211                    1357999999998742             1223334444443322 


Q ss_pred             ccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCc
Q 047029          337 SSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSM  394 (455)
Q Consensus       337 ~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l  394 (455)
                         ...++++++++....+++ + |  |+...|+|+.|+.+++..++++.+..++..+
T Consensus       154 ---~~~ii~i~~~~~~~~~~~-l-~--~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i  204 (253)
T d1sxja2         154 ---STPLILICNERNLPKMRP-F-D--RVCLDIQFRRPDANSIKSRLMTIAIREKFKL  204 (253)
T ss_dssp             ---SSCEEEEESCTTSSTTGG-G-T--TTSEEEECCCCCHHHHHHHHHHHHHHHTCCC
T ss_pred             ---cccccccccccccccccc-c-c--ceeeeeeccccchhHHHHHHHHHHHHhCCCC
Confidence               123444444455555553 3 4  5568999999999999999999887654433

>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=99.77  E-value=1.4e-17  Score=156.91  Aligned_cols=185  Identities=19%  Similarity=0.249  Sum_probs=137.3

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC--------------
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF--------------  267 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~--------------  267 (455)
                      .|.+|++++|++++++.+...+..            ...+.++|||||||||||++|+++|+.++.              
T Consensus         7 rP~~~~dlig~~~~~~~L~~~i~~------------~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~   74 (239)
T d1njfa_           7 RPQTFADVVGQEHVLTALANGLSL------------GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDN   74 (239)
T ss_dssp             CCSSGGGSCSCHHHHHHHHHHHHT------------TCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHH
T ss_pred             CCCCHHHccChHHHHHHHHHHHHc------------CCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchH
Confidence            588999999999998887766541            223568999999999999999999998843              


Q ss_pred             ----------cEEEEeccccCChHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhh
Q 047029          268 ----------DIYDMELASLRSNSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNF  331 (455)
Q Consensus       268 ----------~v~~l~~~~~~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~  331 (455)
                                +++.++.+.......++.++....      ...|+||||+|.+..                ...+.|+..
T Consensus        75 ~~~i~~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~----------------~~q~~Llk~  138 (239)
T d1njfa_          75 CREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSR----------------HSFNALLKT  138 (239)
T ss_dssp             HHHHHHTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCH----------------HHHHHHHHH
T ss_pred             HHHHHcCCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCH----------------HHHHHHHHH
Confidence                      466777665555566777775542      346999999998732                345668888


Q ss_pred             hhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhccccCchhH
Q 047029          332 VDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAE  411 (455)
Q Consensus       332 ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~~~~tpa~  411 (455)
                      |+..    +.+..+|++||.++++.+++++  |+ ..+.++.|+.++.+..+.+.+..+.....++..+.+..       
T Consensus       139 lE~~----~~~~~~il~tn~~~~i~~~i~S--Rc-~~i~~~~~~~~~i~~~l~~i~~~e~~~~~~~~l~~i~~-------  204 (239)
T d1njfa_         139 LEEP----PEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLAR-------  204 (239)
T ss_dssp             HHSC----CTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHH-------
T ss_pred             HhcC----CCCeEEEEEcCCccccChhHhh--hh-cccccccCcHHHhhhHHHHHHhhhccCCCHHHHHHHHH-------
Confidence            8753    2567899999999999999999  88 67999999999999999888877665555444333321       


Q ss_pred             HHhccCCHHHHHHHHHHHH
Q 047029          412 EFMKSEDADVALNGLVDFL  430 (455)
Q Consensus       412 ~l~~~~~~~~al~~l~~~l  430 (455)
                        ..+.|+..|+..+....
T Consensus       205 --~s~Gd~R~ain~l~~~~  221 (239)
T d1njfa_         205 --AAEGSLRDALSLTDQAI  221 (239)
T ss_dssp             --HTTTCHHHHHHHHHHHH
T ss_pred             --HcCCCHHHHHHHHHHHH
Confidence              23457777777654433

>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=99.74  E-value=1.9e-17  Score=154.50  Aligned_cols=161  Identities=15%  Similarity=0.212  Sum_probs=120.5

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC-----CcEEEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK-----FDIYDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~-----~~v~~l~~~  275 (455)
                      ..|.+|++++|++++++.|.+.+.    .       +  ...++|||||||||||++|+++|++++     .+++.++++
T Consensus        18 y~P~~~~diig~~~~~~~l~~~i~----~-------~--~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s   84 (231)
T d1iqpa2          18 YRPQRLDDIVGQEHIVKRLKHYVK----T-------G--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNAS   84 (231)
T ss_dssp             TCCCSTTTCCSCHHHHHHHHHHHH----H-------T--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETT
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHH----c-------C--CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecC
Confidence            568899999999999888777664    2       1  134799999999999999999999874     477888877


Q ss_pred             ccCChHHHHHHHHh--------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEE
Q 047029          276 SLRSNSDLRRLLVS--------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVF  347 (455)
Q Consensus       276 ~~~~~~~l~~ll~~--------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~  347 (455)
                      +..+...++.....        ...+.|+++||+|.+..                .....|+..++...    ...++|+
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~iilide~d~~~~----------------~~~~~ll~~l~~~~----~~~~~i~  144 (231)
T d1iqpa2          85 DERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQ----------------DAQQALRRTMEMFS----SNVRFIL  144 (231)
T ss_dssp             CHHHHHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCH----------------HHHHHHHHHHHHTT----TTEEEEE
T ss_pred             cccchhHHHHHHHHHHhhhhccCCCceEEeehhhhhcch----------------hHHHHHhhhcccCC----cceEEEe
Confidence            65333333333221        23578999999998743                22345666665432    4578899


Q ss_pred             EcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHH
Q 047029          348 TTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDE  397 (455)
Q Consensus       348 TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~e  397 (455)
                      +||+...+++++.+  |+ ..+.++.|+..+...++++.+..+...+.++
T Consensus       145 ~~n~~~~i~~~l~s--R~-~~i~~~~~~~~~~~~~l~~~~~~e~i~i~~~  191 (231)
T d1iqpa2         145 SCNYSSKIIEPIQS--RC-AIFRFRPLRDEDIAKRLRYIAENEGLELTEE  191 (231)
T ss_dssp             EESCGGGSCHHHHH--TE-EEEECCCCCHHHHHHHHHHHHHTTTCEECHH
T ss_pred             ccCChhhchHhHhC--cc-ccccccccchhhHHHHHHHHHHHhCCCCCHH
Confidence            99999999999998  88 4699999999999999999988766554433

>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=99.74  E-value=3.9e-17  Score=151.91  Aligned_cols=186  Identities=15%  Similarity=0.191  Sum_probs=135.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC-----CcEEEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK-----FDIYDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~-----~~v~~l~~~  275 (455)
                      ..|.+|++++|++++++.|.+.+.    .       +.  ..++|||||||||||++|+++|++++     .+++.++.+
T Consensus         9 yrP~~~~d~ig~~~~~~~L~~~~~----~-------~~--~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~   75 (224)
T d1sxjb2           9 YRPQVLSDIVGNKETIDRLQQIAK----D-------GN--MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNAS   75 (224)
T ss_dssp             TCCSSGGGCCSCTHHHHHHHHHHH----S-------CC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTT
T ss_pred             hCCCCHHHhcCCHHHHHHHHHHHH----c-------CC--CCeEEEECCCCCCchhhHHHHHHHHhcccccccccccccc
Confidence            568999999999988888776553    1       11  23699999999999999999999985     457888888


Q ss_pred             ccCChHHHHHHHHhh---------CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEE
Q 047029          276 SLRSNSDLRRLLVST---------GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIV  346 (455)
Q Consensus       276 ~~~~~~~l~~ll~~~---------~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI  346 (455)
                      +..+...+...+...         ....|++|||+|.+..                .....|+..++..    +...+++
T Consensus        76 ~~~~~~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~----------------~~~~~ll~~~e~~----~~~~~~i  135 (224)
T d1sxjb2          76 DDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA----------------GAQQALRRTMELY----SNSTRFA  135 (224)
T ss_dssp             SCCSHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCH----------------HHHHTTHHHHHHT----TTTEEEE
T ss_pred             ccCCceehhhHHHHHHHhhccCCCcceEEEEEecccccch----------------hHHHHHhhhcccc----ccceeee
Confidence            776655555444321         2356999999998743                2344566666543    2457888


Q ss_pred             EEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhccccCchhHHHhccCCHHHHHHHH
Q 047029          347 FTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEFMKSEDADVALNGL  426 (455)
Q Consensus       347 ~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~~~~tpa~~l~~~~~~~~al~~l  426 (455)
                      ++||..+.+.+++++  |+ ..|+|+.|+.++...++.+.+..++..+.++..+.+..         ..+.|+..|+..|
T Consensus       136 ~~~~~~~~i~~~l~s--r~-~~i~~~~~~~~~i~~~l~~i~~~e~~~i~~~~l~~I~~---------~s~Gd~R~ai~~L  203 (224)
T d1sxjb2         136 FACNQSNKIIEPLQS--QC-AILRYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIF---------TAEGDMRQAINNL  203 (224)
T ss_dssp             EEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHH---------HHTTCHHHHHHHH
T ss_pred             eccCchhhhhhHHHH--HH-HHhhhcccchhhhHHHHHHHHHhcccCCCHHHHHHHHH---------HcCCcHHHHHHHH
Confidence            999999999999999  88 57999999999999999988877665554443333211         2346788888776


Q ss_pred             HHHHH
Q 047029          427 VDFLL  431 (455)
Q Consensus       427 ~~~l~  431 (455)
                      .....
T Consensus       204 q~~~~  208 (224)
T d1sxjb2         204 QSTVA  208 (224)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55443

>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=99.71  E-value=1.2e-16  Score=148.41  Aligned_cols=162  Identities=22%  Similarity=0.308  Sum_probs=119.4

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC-----cEEEEecc
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-----DIYDMELA  275 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~-----~v~~l~~~  275 (455)
                      ..|.+|++++|++++++.|...+.    .       |.  ..++|||||||||||++|+++|++++.     .++..+.+
T Consensus         8 yrP~~~~divg~~~~~~~L~~~i~----~-------~~--~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~   74 (227)
T d1sxjc2           8 YRPETLDEVYGQNEVITTVRKFVD----E-------GK--LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNAS   74 (227)
T ss_dssp             TCCSSGGGCCSCHHHHHHHHHHHH----T-------TC--CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTT
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHH----c-------CC--CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEeccc
Confidence            468999999999988888777653    2       11  225999999999999999999999843     35566666


Q ss_pred             ccCChHHHHHHHH---hh-----CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEE
Q 047029          276 SLRSNSDLRRLLV---ST-----GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVF  347 (455)
Q Consensus       276 ~~~~~~~l~~ll~---~~-----~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~  347 (455)
                      +..+.........   ..     ....|++|||+|.+..                ...+.|+..|+...    ...++++
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~kiiiiDe~d~~~~----------------~~~~~Ll~~le~~~----~~~~~~~  134 (227)
T d1sxjc2          75 DDRGIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTN----------------AAQNALRRVIERYT----KNTRFCV  134 (227)
T ss_dssp             SCCSHHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCH----------------HHHHHHHHHHHHTT----TTEEEEE
T ss_pred             ccCCeeeeecchhhccccccccCCCeEEEEEeccccchh----------------hHHHHHHHHhhhcc----cceeecc
Confidence            5544333322221   11     2346999999998743                34566777777542    4578899


Q ss_pred             EcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHH
Q 047029          348 TTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEI  398 (455)
Q Consensus       348 TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei  398 (455)
                      +||.+..+++++++  |+ ..+.|..|+.++...++.+.+..++..+.++.
T Consensus       135 ~~~~~~~i~~~i~s--r~-~~i~~~~~~~~~i~~~l~~I~~~e~i~i~~~~  182 (227)
T d1sxjc2         135 LANYAHKLTPALLS--QC-TRFRFQPLPQEAIERRIANVLVHEKLKLSPNA  182 (227)
T ss_dssp             EESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHTTTCCBCHHH
T ss_pred             ccCcHHHhHHHHHH--HH-hhhccccccccccccccccccccccccCCHHH
Confidence            99999999999999  87 57899999999999999988877665554443

>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=99.67  E-value=1.9e-16  Score=148.87  Aligned_cols=157  Identities=13%  Similarity=0.183  Sum_probs=105.0

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC---CcEE-------
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---FDIY-------  270 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~---~~v~-------  270 (455)
                      ..|.+|++++|.+++++.|...+.    .       +.. ..++|||||||||||++|+++|+++.   ....       
T Consensus         5 y~P~~~~diig~~~~~~~L~~~~~----~-------~~~-~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~   72 (252)
T d1sxje2           5 YRPKSLNALSHNEELTNFLKSLSD----Q-------PRD-LPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQF   72 (252)
T ss_dssp             TCCCSGGGCCSCHHHHHHHHTTTT----C-------TTC-CCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC--------
T ss_pred             cCCCCHHHccCcHHHHHHHHHHHH----c-------CCC-CCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccc
Confidence            468999999999888777754332    1       111 33799999999999999999999861   1111       


Q ss_pred             -------------------EEeccccCC--hHHHHHHHHhh----------------CCceEEEEecccchhhhhhhcCC
Q 047029          271 -------------------DMELASLRS--NSDLRRLLVST----------------GNRSILVIEDIDCSIELENRQCG  313 (455)
Q Consensus       271 -------------------~l~~~~~~~--~~~l~~ll~~~----------------~~~~IL~iDEiD~l~~~~~~~~~  313 (455)
                                         .+.......  ...........                ....+++|||+|.+..       
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~-------  145 (252)
T d1sxje2          73 VTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTK-------  145 (252)
T ss_dssp             ----------CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCH-------
T ss_pred             cccccchhhhhhccCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEecccccccc-------
Confidence                               111111111  11111111110                1245999999998743       


Q ss_pred             CCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCC
Q 047029          314 GGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSH  392 (455)
Q Consensus       314 ~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~  392 (455)
                               .....|+..++..    +....+|++||+++.+++++++  || ..|+|+.|+.++...++...+..+..
T Consensus       146 ---------~~~~~l~~~~e~~----~~~~~~Il~tn~~~~i~~~l~s--R~-~~i~~~~~~~~~~~~~l~~i~~~e~~  208 (252)
T d1sxje2         146 ---------DAQAALRRTMEKY----SKNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPAPSDSEISTILSDVVTNERI  208 (252)
T ss_dssp             ---------HHHHHHHHHHHHS----TTTEEEEEEESCSCSSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTC
T ss_pred             ---------ccchhhhcccccc----cccccceeeeccccchhhhhhc--ch-heeeecccchhhHHHHHHHHHHHcCC
Confidence                     2345566666543    3457789999999999999998  98 58999999999999999887765543

>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=99.66  E-value=6.5e-16  Score=143.79  Aligned_cols=186  Identities=19%  Similarity=0.207  Sum_probs=127.7

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc------CCcEEEEec
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL------KFDIYDMEL  274 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l------~~~v~~l~~  274 (455)
                      ..|.+|++++|.+++++.|...+.    ..       .  ..++|||||||||||++++++|+++      +...+.++.
T Consensus         6 y~P~~~~diig~~~~~~~l~~~i~----~~-------~--~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~   72 (237)
T d1sxjd2           6 YRPKNLDEVTAQDHAVTVLKKTLK----SA-------N--LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNA   72 (237)
T ss_dssp             TCCSSTTTCCSCCTTHHHHHHHTT----CT-------T--CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECS
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHH----cC-------C--CCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheec
Confidence            568999999999988887766543    21       1  2359999999999999999999987      566777776


Q ss_pred             cccCChHHHHHHHHh------------------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc
Q 047029          275 ASLRSNSDLRRLLVS------------------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW  336 (455)
Q Consensus       275 ~~~~~~~~l~~ll~~------------------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~  336 (455)
                      +...........+..                  .....|+||||+|.+..                ...+.++..++.. 
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~----------------~~~~~l~~~~~~~-  135 (237)
T d1sxjd2          73 SDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTA----------------DAQSALRRTMETY-  135 (237)
T ss_dssp             SSCCCHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCH----------------HHHHHHHHHHHHT-
T ss_pred             cccccchHHHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCH----------------HHHHHHhhccccc-
Confidence            655443222222211                  11345999999998743                2233444444432 


Q ss_pred             ccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhccccCchhHHHhcc
Q 047029          337 SSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIKEVEVTPAEEFMKS  416 (455)
Q Consensus       337 ~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~~~~~tpa~~l~~~  416 (455)
                         ....++|+++|....+.+++.+  |+ .+|.|..|+.++...+++..+..++..+.+++-+.+..         ..+
T Consensus       136 ---~~~~~~i~~~~~~~~~~~~l~s--r~-~~i~f~~~~~~~~~~~L~~i~~~e~i~i~~~~l~~ia~---------~s~  200 (237)
T d1sxjd2         136 ---SGVTRFCLICNYVTRIIDPLAS--QC-SKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILD---------ISA  200 (237)
T ss_dssp             ---TTTEEEEEEESCGGGSCHHHHH--HS-EEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHH---------HTS
T ss_pred             ---cccccccccccccccccccccc--hh-hhhccccccccccchhhhhhhhhhcCcCCHHHHHHHHH---------HcC
Confidence               1446788899999999999998  88 68999999999999999988876665555544333321         124


Q ss_pred             CCHHHHHHHHHHHHH
Q 047029          417 EDADVALNGLVDFLL  431 (455)
Q Consensus       417 ~~~~~al~~l~~~l~  431 (455)
                      .|...|+..|..+..
T Consensus       201 gd~R~ai~~L~~~~~  215 (237)
T d1sxjd2         201 GDLRRGITLLQSASK  215 (237)
T ss_dssp             SCHHHHHHHHHHTHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            577777766654443

>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=99.61  E-value=7e-16  Score=153.92  Aligned_cols=148  Identities=20%  Similarity=0.147  Sum_probs=101.0

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCC
Q 047029          213 PVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGN  292 (455)
Q Consensus       213 ~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~  292 (455)
                      ++++..+.+.+..++        .|+|.++++|||||||||||++|+++|++++.+++.+++++..+..    .+.....
T Consensus       134 ~~~~~~i~~~l~~~~--------~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s~~rs~~----~l~~~~~  201 (362)
T d1svma_         134 PKMDSVVYDFLKCMV--------YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNF----ELGVAID  201 (362)
T ss_dssp             TTHHHHHHHHHHHHH--------HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHH----HHGGGTT
T ss_pred             cchHHHHHHHHHHHH--------hCCCCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECcchhhHH----HHHhHHH
Confidence            345555555554332        3788899999999999999999999999999999999888754332    2344456


Q ss_pred             ceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCc----------eEEEEEcCCCCCCCccccCC
Q 047029          293 RSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDE----------RIIVFTTNYKERLDPALLRP  362 (455)
Q Consensus       293 ~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~----------~ivI~TTN~~~~Ld~allRp  362 (455)
                      +.+.++||+++........     .....-..+..+.+.+||....+.+.          ..+|+|||+   ++.+++||
T Consensus       202 ~~~~l~d~~~~~~~~~~~~-----~~~~~~DeiD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~---~~~~~~r~  273 (362)
T d1svma_         202 QFLVVFEDVKGTGGESRDL-----PSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNE---YSVPKTLQ  273 (362)
T ss_dssp             CSCEEETTCCCSTTTTTTC-----CCCSHHHHHHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECS---CCCCHHHH
T ss_pred             HHHHHHHHHHHhhhhccCC-----CCeEEEehHhhcccccCCcchhhhhhhhhchhhhccCCceeeccc---cccccccc
Confidence            6778889888764311110     01111233455667777653221111          248889996   57788899


Q ss_pred             CceeEEEEeCCCCHHHHH
Q 047029          363 GRMDMHIHMSYLTPGGFK  380 (455)
Q Consensus       363 GR~d~~I~~~~p~~~~~~  380 (455)
                      |||+..|.+..|....+.
T Consensus       274 ~Rf~~~i~~~~~~~~~~~  291 (362)
T d1svma_         274 ARFVKQIDFRPKDYLKHC  291 (362)
T ss_dssp             TTEEEEEECCCCHHHHHH
T ss_pred             ccCceEEeecCCCcHHHH
Confidence            999999999998876654

>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=99.51  E-value=2.3e-13  Score=127.72  Aligned_cols=212  Identities=17%  Similarity=0.102  Sum_probs=130.2

Q ss_pred             ccCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEec
Q 047029          199 NLDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMEL  274 (455)
Q Consensus       199 ~~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~  274 (455)
                      .|.+....+++++.++..++|.+.|...++++.       ..++++|||||||||||++++++|+.+    +..++.+++
T Consensus         8 ~l~~~y~p~~l~~Re~ei~~l~~~l~~~l~~~~-------~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~   80 (276)
T d1fnna2           8 VFSPSYVPKRLPHREQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYING   80 (276)
T ss_dssp             GGSTTCCCSCCTTCHHHHHHHHHHHHHHHHSTT-------SSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEET
T ss_pred             cCCCCCCCCCCCCHHHHHHHHHHHHHHHHhCCC-------CCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecc
Confidence            455555667889999989999988887666542       346799999999999999999999998    345666655


Q ss_pred             cccCCh----------------------HH----HHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhh
Q 047029          275 ASLRSN----------------------SD----LRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGL  328 (455)
Q Consensus       275 ~~~~~~----------------------~~----l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~L  328 (455)
                      ......                      ..    +.+.+.......++++|++|.+..             ........+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~-------------~~~~~~~~~  147 (276)
T d1fnna2          81 FIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAP-------------DILSTFIRL  147 (276)
T ss_dssp             TTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCH-------------HHHHHHHHH
T ss_pred             hhhhhhhhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhh-------------hhhhhHHHH
Confidence            433111                      11    112222334567888999987643             111222233


Q ss_pred             hhhhhcccccCCCceEEEEEcCCC---CCCCccccCCCcee-EEEEeCCCCHHHHHHHHHHhhccc--CCCchHHHHHhh
Q 047029          329 LNFVDGLWSSCGDERIIVFTTNYK---ERLDPALLRPGRMD-MHIHMSYLTPGGFKILAFNYLKIK--SHSMFDEIEELI  402 (455)
Q Consensus       329 L~~ldg~~~~~~~~~ivI~TTN~~---~~Ld~allRpGR~d-~~I~~~~p~~~~~~~L~~~~l~~~--~~~l~~ei~~ll  402 (455)
                      +..+...   .....++|+++|..   +.+++++.+  |+. ..|+|+.++.++...+++.++...  .....++.-+.+
T Consensus       148 ~~~~~~~---~~~~~~~i~~~~~~~~~~~~~~~~~~--r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i  222 (276)
T d1fnna2         148 GQEADKL---GAFRIALVIVGHNDAVLNNLDPSTRG--IMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMI  222 (276)
T ss_dssp             TTCHHHH---SSCCEEEEEEESSTHHHHTSCHHHHH--HHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHH
T ss_pred             Hhccccc---cccceEEeecCCchhhhhhcchhhhh--hhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHH
Confidence            3332222   22457788888864   578888876  543 568999999999999998877642  222334433333


Q ss_pred             cc-ccCchhHHHhccCCHHHHHHHHHHHHHHhhhh
Q 047029          403 KE-VEVTPAEEFMKSEDADVALNGLVDFLLRKKEQ  436 (455)
Q Consensus       403 ~~-~~~tpa~~l~~~~~~~~al~~l~~~l~~~~~~  436 (455)
                      .+ ..... .......++..+++-+..++......
T Consensus       223 a~~~~~~~-~~~~~~G~~R~a~~ll~~a~~~A~~~  256 (276)
T d1fnna2         223 ADITGAQT-PLDTNRGDARLAIDILYRSAYAAQQN  256 (276)
T ss_dssp             HHHHSBSS-TTCTTSCCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHhhhhh-hhhhcCCCHHHHHHHHHHHHHHHHHc
Confidence            21 11000 11112357777777776666554433

>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=99.46  E-value=2.7e-13  Score=129.19  Aligned_cols=199  Identities=21%  Similarity=0.220  Sum_probs=128.1

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEEEec
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYDMEL  274 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~l~~  274 (455)
                      .++.++|-++..+++++.|.             ...++++||.||||+|||++++.+|..+          +..++.+++
T Consensus        16 ~ld~~igRd~Ei~~l~~iL~-------------r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~   82 (268)
T d1r6bx2          16 GIDPLIGREKELERAIQVLC-------------RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDI   82 (268)
T ss_dssp             CSCCCCSCHHHHHHHHHHHT-------------SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCC
T ss_pred             CCCcccChHHHHHHHHHHHh-------------cCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeee
Confidence            46677887776666666552             2336799999999999999999999875          578999998


Q ss_pred             cccCC--------hHHHHHHHHhhC--CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceE
Q 047029          275 ASLRS--------NSDLRRLLVSTG--NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERI  344 (455)
Q Consensus       275 ~~~~~--------~~~l~~ll~~~~--~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~i  344 (455)
                      +.+..        ...+..++....  .+.|+||||++.++....        ...+...+..+|.   ...++  +++-
T Consensus        83 ~~liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~--------~~g~~~d~a~~Lk---p~L~r--g~i~  149 (268)
T d1r6bx2          83 GSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGA--------ASGGQVDAANLIK---PLLSS--GKIR  149 (268)
T ss_dssp             C---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCC--------SSSCHHHHHHHHS---SCSSS--CCCE
T ss_pred             chHhccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCC--------CCCccccHHHHhh---HHHhC--CCCe
Confidence            87632        245566666653  468999999999975211        0111222333332   22222  5677


Q ss_pred             EEEEcCC-----CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhcc----cCCCc-hHHHHHhhccccCchhHHHh
Q 047029          345 IVFTTNY-----KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKI----KSHSM-FDEIEELIKEVEVTPAEEFM  414 (455)
Q Consensus       345 vI~TTN~-----~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~----~~~~l-~~ei~~ll~~~~~tpa~~l~  414 (455)
                      +|++|..     ...-|+||.|  || ..|.+..|+.++-..|+..+...    +.... .+.+...+.-    ...++-
T Consensus       150 vIgatT~eey~~~~e~d~al~r--rF-~~I~V~Eps~e~t~~IL~~~~~~~e~~h~v~~~~~al~~~v~l----s~ryi~  222 (268)
T d1r6bx2         150 VIGSTTYQEFSNIFEKDRALAR--RF-QKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVEL----AVKYIN  222 (268)
T ss_dssp             EEEEECHHHHHCCCCCTTSSGG--GE-EEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHH----HHHHCT
T ss_pred             EEEeCCHHHHHHHHhhcHHHHh--hh-cccccCCCCHHHHHHHHHHhhHHHhccCCEEeChHHHHHHHHH----HHhhcc
Confidence            7776652     2455899999  99 47999999999988888754432    11122 2333333221    013444


Q ss_pred             ccCCHHHHHHHHHHHHHHhhhh
Q 047029          415 KSEDADVALNGLVDFLLRKKEQ  436 (455)
Q Consensus       415 ~~~~~~~al~~l~~~l~~~~~~  436 (455)
                      .+.-|++|++-+-++..+.+..
T Consensus       223 ~~~~PdKAIdllDea~a~~~~~  244 (268)
T d1r6bx2         223 DRHLPDKAIDVIDEAGARARLM  244 (268)
T ss_dssp             TSCTTHHHHHHHHHHHHHHHHS
T ss_pred             CCCCCcHHHHHHHHHHHHHHhh
Confidence            5678999999888877766543

>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=99.46  E-value=6.9e-13  Score=125.05  Aligned_cols=217  Identities=11%  Similarity=0.010  Sum_probs=126.1

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcC---------CcEE
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLK---------FDIY  270 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~---------~~v~  270 (455)
                      |++....+.+.+-++..++|.+.+..++.+..    ...+....++||||||||||++++++++.+.         ..+.
T Consensus         9 l~~~~~P~~~~~Re~e~~~l~~~l~~~~~~~~----~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~   84 (287)
T d1w5sa2           9 FDENYIPPELRVRRGEAEALARIYLNRLLSGA----GLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQA   84 (287)
T ss_dssp             GSTTCCCSSCSSSCHHHHHHHHHHHHHHHTSS----CBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             cCCccCCCCCCCHHHHHHHHHHHHHHHHHcCC----CCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceee
Confidence            34444557788888888888888766654421    0111122477899999999999999999872         3344


Q ss_pred             EEeccccCCh----------------------HHH----HHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhh
Q 047029          271 DMELASLRSN----------------------SDL----RRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVT  324 (455)
Q Consensus       271 ~l~~~~~~~~----------------------~~l----~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~  324 (455)
                      .+++....+.                      ..+    .........+.++++||+|.+.....       ........
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~-------~~~~~~~~  157 (287)
T d1w5sa2          85 YVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPR-------IAAEDLYT  157 (287)
T ss_dssp             EEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTT-------SCHHHHHH
T ss_pred             eeccccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccc-------cchhHHHH
Confidence            4554443211                      122    22223345678999999998754110       01112223


Q ss_pred             HhhhhhhhhcccccCCCceEEEEEcCCCC------CCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc--CCCchH
Q 047029          325 LSGLLNFVDGLWSSCGDERIIVFTTNYKE------RLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK--SHSMFD  396 (455)
Q Consensus       325 ls~LL~~ldg~~~~~~~~~ivI~TTN~~~------~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~--~~~l~~  396 (455)
                      +..+.+.+......  ....+|+.+|.++      ..++++.+  |+..+++++.++.++..++++..+...  ...+.+
T Consensus       158 l~~l~~~l~~~~~~--~~~~~i~i~~~~~~~~~~~~~~~~~~~--r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~  233 (287)
T d1w5sa2         158 LLRVHEEIPSRDGV--NRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEP  233 (287)
T ss_dssp             HHTHHHHSCCTTSC--CBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCH
T ss_pred             HHHHHHhcchhhcc--cceeEEeecccHHHHHHHHhhccchhc--ccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCH
Confidence            33344444333322  3455666665443      23467777  999999999999999999999877542  222333


Q ss_pred             HHHHhhccccCchhHHHhccCCHHHHHHHHHHHHHHhh
Q 047029          397 EIEELIKEVEVTPAEEFMKSEDADVALNGLVDFLLRKK  434 (455)
Q Consensus       397 ei~~ll~~~~~tpa~~l~~~~~~~~al~~l~~~l~~~~  434 (455)
                      +.-+++.+..   +.+.-...|+..|++-+..++..+.
T Consensus       234 ~al~~ia~~~---~~~~~~~gd~R~ai~~l~~a~~~A~  268 (287)
T d1w5sa2         234 RHLELISDVY---GEDKGGDGSARRAIVALKMACEMAE  268 (287)
T ss_dssp             HHHHHHHHHH---CGGGTSCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH---hccccCCCCHHHHHHHHHHHHHHHH
Confidence            3333332100   0111224578888877777665543

>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=99.46  E-value=1.4e-13  Score=127.19  Aligned_cols=177  Identities=14%  Similarity=0.246  Sum_probs=109.4

Q ss_pred             cCCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccc
Q 047029          200 LDHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELAS  276 (455)
Q Consensus       200 ~~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~  276 (455)
                      +++..|||+.+..+.- +.....+..+...+      | ..-+.++||||||||||+|++|+|+++   +..++.++...
T Consensus         3 ln~~~tFdnF~vg~~N-~~a~~~~~~~~~~~------~-~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~   74 (213)
T d1l8qa2           3 LNPKYTLENFIVGEGN-RLAYEVVKEALENL------G-SLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADD   74 (213)
T ss_dssp             CCTTCCSSSCCCCTTT-HHHHHHHHHHHHTT------T-TSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CCCCCChhhccCCCcH-HHHHHHHHHHHhCc------C-CCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHH
Confidence            3456799997532221 11223333333322      2 122459999999999999999999998   56777777655


Q ss_pred             cCC-------hHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEc
Q 047029          277 LRS-------NSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTT  349 (455)
Q Consensus       277 ~~~-------~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TT  349 (455)
                      ...       .......+.......+|+|||||.+..           ....+..   |.+.++.....  +..+|+.+.
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~dll~iDDi~~i~~-----------~~~~~~~---lf~lin~~~~~--~~~iiits~  138 (213)
T d1l8qa2          75 FAQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFLSG-----------KERTQIE---FFHIFNTLYLL--EKQIILASD  138 (213)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGGTT-----------CHHHHHH---HHHHHHHHHHT--TCEEEEEES
T ss_pred             HHHHHHHHHHccchhhHHHHHhhccchhhhhhhhhcC-----------chHHHHH---HHHHHHHHhhc--cceEEEecC
Confidence            421       112223333445678999999998753           1222333   44444444332  345555555


Q ss_pred             CCCCCC---CccccCCCce--eEEEEeCCCCHHHHHHHHHHhhcccCCCchHHHHHhhc
Q 047029          350 NYKERL---DPALLRPGRM--DMHIHMSYLTPGGFKILAFNYLKIKSHSMFDEIEELIK  403 (455)
Q Consensus       350 N~~~~L---d~allRpGR~--d~~I~~~~p~~~~~~~L~~~~l~~~~~~l~~ei~~ll~  403 (455)
                      ..|..+   .+.|.+  |+  ...+.++ |+.+.+.++++.+....+..+.+++...+-
T Consensus       139 ~~p~~l~~~~~dL~S--RL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~~~v~~yl~  194 (213)
T d1l8qa2         139 RHPQKLDGVSDRLVS--RFEGGILVEIE-LDNKTRFKIIKEKLKEFNLELRKEVIDYLL  194 (213)
T ss_dssp             SCGGGCTTSCHHHHH--HHHTSEEEECC-CCHHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             CcchhccccchHHHH--HhhCceEEEEC-CCcHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            566544   466766  54  3667786 677889999999998877777777766653

>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=99.43  E-value=2e-12  Score=118.73  Aligned_cols=125  Identities=18%  Similarity=0.160  Sum_probs=93.9

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcC------------------------CcEEEEecccc---CChHHHHHHHHhhC-
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLK------------------------FDIYDMELASL---RSNSDLRRLLVSTG-  291 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~------------------------~~v~~l~~~~~---~~~~~l~~ll~~~~-  291 (455)
                      .+.++||+||||+|||++|+++|+.+.                        .+++.+....-   .....++++..... 
T Consensus        23 l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~ir~l~~~~~~  102 (207)
T d1a5ta2          23 GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNE  102 (207)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTS
T ss_pred             cCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcccccccchhhHHhhhhhh
Confidence            366899999999999999999999872                        23444433221   12345665554332 


Q ss_pred             -----CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCcee
Q 047029          292 -----NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMD  366 (455)
Q Consensus       292 -----~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d  366 (455)
                           +..|++|||+|.+-.                ...+.||..|+.-    +.+.++|++||++..|.|++++  |+ 
T Consensus       103 ~~~~~~~kviIide~d~l~~----------------~a~n~Llk~lEep----~~~~~fIl~t~~~~~ll~tI~S--Rc-  159 (207)
T d1a5ta2         103 HARLGGAKVVWVTDAALLTD----------------AAANALLKTLEEP----PAETWFFLATREPERLLATLRS--RC-  159 (207)
T ss_dssp             CCTTSSCEEEEESCGGGBCH----------------HHHHHHHHHHTSC----CTTEEEEEEESCGGGSCHHHHT--TS-
T ss_pred             ccccCccceEEechhhhhhh----------------hhhHHHHHHHHhh----cccceeeeeecChhhhhhhhcc--ee-
Confidence                 457999999998742                4567788888764    3568899999999999999999  98 


Q ss_pred             EEEEeCCCCHHHHHHHHHHhh
Q 047029          367 MHIHMSYLTPGGFKILAFNYL  387 (455)
Q Consensus       367 ~~I~~~~p~~~~~~~L~~~~l  387 (455)
                      ..|.|+.|+.++....++.-.
T Consensus       160 ~~i~~~~~~~~~~~~~L~~~~  180 (207)
T d1a5ta2         160 RLHYLAPPPEQYAVTWLSREV  180 (207)
T ss_dssp             EEEECCCCCHHHHHHHHHHHC
T ss_pred             EEEecCCCCHHHHHHHHHHcC
Confidence            789999999998887776533

>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=99.41  E-value=4.6e-13  Score=134.17  Aligned_cols=199  Identities=18%  Similarity=0.187  Sum_probs=117.2

Q ss_pred             CcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEEEecc
Q 047029          206 FDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYDMELA  275 (455)
Q Consensus       206 fd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~l~~~  275 (455)
                      +|.++|-++-.+++++.|.             ...+.+.+|.||||+|||+++..+|..+          +..++.++++
T Consensus        21 ld~~~gr~~ei~~~~~~L~-------------r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~   87 (387)
T d1qvra2          21 LDPVIGRDEEIRRVIQILL-------------RRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMG   87 (387)
T ss_dssp             SCCCCSCHHHHHHHHHHHH-------------CSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-
T ss_pred             CCCCcCcHHHHHHHHHHHh-------------cCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHh
Confidence            5667887777777776654             2336789999999999999999999875          5679999998


Q ss_pred             ccCC--------hHHHHHHHHhh---CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceE
Q 047029          276 SLRS--------NSDLRRLLVST---GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERI  344 (455)
Q Consensus       276 ~~~~--------~~~l~~ll~~~---~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~i  344 (455)
                      .+..        ...+..++...   ..+.||||||++.++......     +.......+...|..         +++-
T Consensus        88 ~l~ag~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~-----g~~d~a~~Lkp~L~r---------g~~~  153 (387)
T d1qvra2          88 SLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAE-----GAVDAGNMLKPALAR---------GELR  153 (387)
T ss_dssp             ----------CHHHHHHHHHHHHHTTCSSEEEEECCC------------------------HHHHHT---------TCCC
T ss_pred             hhhcccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCC-----CcccHHHHHHHHHhC---------CCcc
Confidence            8743        24555565544   235789999999997622110     011111222222221         3444


Q ss_pred             EEEEcC-----CCCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhccc--CCC--c-hHHHHHhhccccCchhHHHh
Q 047029          345 IVFTTN-----YKERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLKIK--SHS--M-FDEIEELIKEVEVTPAEEFM  414 (455)
Q Consensus       345 vI~TTN-----~~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~~~--~~~--l-~~ei~~ll~~~~~tpa~~l~  414 (455)
                      +|++|.     ..+. |+||.|  ||. .|.+..|+.++-..|++..-..-  .|.  . .+.|...+.    ...+++-
T Consensus       154 ~I~~tT~~ey~~~e~-d~al~r--rF~-~v~v~ep~~~~~~~il~~~~~~~e~~h~v~~~~~ai~~~v~----ls~ryi~  225 (387)
T d1qvra2         154 LIGATTLDEYREIEK-DPALER--RFQ-PVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAAT----LSHRYIT  225 (387)
T ss_dssp             EEEEECHHHHHHHTT-CTTTCS--CCC-CEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHH----HHHHHCC
T ss_pred             eeeecCHHHHHHhcc-cHHHHH--hcc-cccCCCCcHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHH----hcccccc
Confidence            555443     2355 899999  995 79999999999888877554321  121  1 222322221    0013444


Q ss_pred             ccCCHHHHHHHHHHHHHHhhhhccc
Q 047029          415 KSEDADVALNGLVDFLLRKKEQTMK  439 (455)
Q Consensus       415 ~~~~~~~al~~l~~~l~~~~~~~~~  439 (455)
                      .+.-|+.|++-+-++..+.+.....
T Consensus       226 ~r~~PdKAidlld~a~a~~~i~~~s  250 (387)
T d1qvra2         226 ERRLPDKAIDLIDEAAARLRMALES  250 (387)
T ss_dssp             SSCTHHHHHHHHHHHHHHHHHTTTT
T ss_pred             cccChhhHHHHHHHHHHHHHhhccC
Confidence            5678889988888888777665443

>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=99.40  E-value=1.6e-12  Score=127.06  Aligned_cols=156  Identities=16%  Similarity=0.245  Sum_probs=112.1

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhcC-CCCc-eeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh-----
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVGK-AWKR-GYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN-----  280 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~-~~~r-g~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~-----  280 (455)
                      .++|+++.++.|...+.....      .+.. ..|. .+||.||||||||.||+++|..++.+++.++++.+...     
T Consensus        23 ~viGQ~~a~~~v~~~v~~~~~------~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~~   96 (315)
T d1r6bx3          23 LVFGQDKAIEALTEAIKMARA------GLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSR   96 (315)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHT------TCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSS
T ss_pred             eecChHHHHHHHHHHHHHHHc------cCCCCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhh
Confidence            578999999999987753321      1111 1133 58999999999999999999999999999999876321     


Q ss_pred             --------------HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccc--cc-----C
Q 047029          281 --------------SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLW--SS-----C  339 (455)
Q Consensus       281 --------------~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~--~~-----~  339 (455)
                                    ..+...+ .....+|+++||||.+.+                ...+.||..+|.-.  ..     .
T Consensus        97 l~g~~~gy~g~~~~~~l~~~~-~~~~~~vvl~DeieKa~~----------------~V~~~lLqild~G~ltd~~Gr~vd  159 (315)
T d1r6bx3          97 LIGAPPGYVGFDQGGLLTDAV-IKHPHAVLLLDEIEKAHP----------------DVFNILLQVMDNGTLTDNNGRKAD  159 (315)
T ss_dssp             SCCCCSCSHHHHHTTHHHHHH-HHCSSEEEEEETGGGSCH----------------HHHHHHHHHHHHSEEEETTTEEEE
T ss_pred             hcccCCCccccccCChhhHHH-HhCccchhhhcccccccc----------------hHhhhhHHhhccceecCCCCCccC
Confidence                          1133333 335678999999998632                35667777776321  11     1


Q ss_pred             CCceEEEEEcCCC-------------------------CCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          340 GDERIIVFTTNYK-------------------------ERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       340 ~~~~ivI~TTN~~-------------------------~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                      -.+.++|+|||--                         ..+.|.++.  |+|..|.+.+.+.++...|+..++.
T Consensus       160 f~n~iiI~Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~ii~f~~l~~~~~~~I~~~~l~  231 (315)
T d1r6bx3         160 FRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIV  231 (315)
T ss_dssp             CTTEEEEEEECSSCC-----------------CHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             ccceEEEeccchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHh--hhhhhhcccchhhhHHHHHHHHHHH
Confidence            2457899999932                         125666666  9999999999999999988887764

>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=99.37  E-value=5.4e-13  Score=130.94  Aligned_cols=150  Identities=23%  Similarity=0.267  Sum_probs=97.3

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCC----------------
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF----------------  267 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~----------------  267 (455)
                      ..|.+|+|++.+|+.|.-.+.    .+      |   ..++||+||||||||++|+++|..|..                
T Consensus         4 ~~f~~I~Gq~~~kral~laa~----~~------~---~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~~~   70 (333)
T d1g8pa_           4 FPFSAIVGQEDMKLALLLTAV----DP------G---IGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEM   70 (333)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHH----CG------G---GCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGG
T ss_pred             CChhhccCcHHHHHHHHHHHh----cc------C---CCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCcccc
Confidence            479999999999987654332    10      1   247999999999999999999987621                


Q ss_pred             -----------------cEEEEeccc----cCChHHHHHHHHh-----------hCCceEEEEecccchhhhhhhcCCCC
Q 047029          268 -----------------DIYDMELAS----LRSNSDLRRLLVS-----------TGNRSILVIEDIDCSIELENRQCGGG  315 (455)
Q Consensus       268 -----------------~v~~l~~~~----~~~~~~l~~ll~~-----------~~~~~IL~iDEiD~l~~~~~~~~~~~  315 (455)
                                       +++....+.    +.+.-++...+..           .....|+|||||+.+-          
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~~----------  140 (333)
T d1g8pa_          71 IPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLE----------  140 (333)
T ss_dssp             SCTTCCCSCCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSC----------
T ss_pred             ccchhhccccCcccccCceeeccCCCCcccccCcchhhhccccCcceeeccccccccccEeecccHHHHH----------
Confidence                             111111100    0001111222211           1135799999999763          


Q ss_pred             CCCCcchhhHhhhhhhhhc---------ccccCCCceEEEEEcCC-CCCCCccccCCCceeEEEEeCCCC-HHHHHHHHH
Q 047029          316 YDENNSQVTLSGLLNFVDG---------LWSSCGDERIIVFTTNY-KERLDPALLRPGRMDMHIHMSYLT-PGGFKILAF  384 (455)
Q Consensus       316 ~~~~~~~~~ls~LL~~ldg---------~~~~~~~~~ivI~TTN~-~~~Ld~allRpGR~d~~I~~~~p~-~~~~~~L~~  384 (455)
                            ..+++.|++.|+.         .....+...++|+|+|. +..+.+++++  ||+++|.+++|. .+.+..+..
T Consensus       141 ------~~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~~~~l~~~llD--Rf~~~i~v~~~~~~~~~~~~~~  212 (333)
T d1g8pa_         141 ------DHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVETRVEVIR  212 (333)
T ss_dssp             ------HHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHHHHHHHHH
T ss_pred             ------HHHHHHHhhhhcCCeEEecccCceecCCCCEEEEEecCccccccccchhh--hhcceeeccCcchhhHHHHHHH
Confidence                  3577889998862         22222345688889995 4669999999  999999999885 444444443

>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=99.36  E-value=1.9e-12  Score=126.48  Aligned_cols=156  Identities=18%  Similarity=0.274  Sum_probs=111.7

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhhc-CCCCc-eeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCCh--
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRVG-KAWKR-GYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSN--  280 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g-~~~~r-g~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~--  280 (455)
                      .++|+++.++.|.+.+.....+      +. ...|. .+||+||+|||||.+|+++|+.+   +.+++.+++++....  
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~------l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~   97 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAG------LKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA   97 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGG------CSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGG
T ss_pred             eEeCHHHHHHHHHHHHHHHhcC------CCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchh
Confidence            4688999999988877643221      11 11233 57888999999999999999998   678999988766431  


Q ss_pred             -----------------HHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhccccc-----
Q 047029          281 -----------------SDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSS-----  338 (455)
Q Consensus       281 -----------------~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~-----  338 (455)
                                       ..+.+.+.. ...+|++|||||.+-+                ..++.|+..+|.-...     
T Consensus        98 ~~~L~g~~~gyvG~~~~~~l~~~~~~-~p~~Vvl~DEieK~~~----------------~v~~~ll~~l~~g~~~~~~gr  160 (315)
T d1qvra3          98 VSRLIGAPPGYVGYEEGGQLTEAVRR-RPYSVILFDEIEKAHP----------------DVFNILLQILDDGRLTDSHGR  160 (315)
T ss_dssp             GGGC--------------CHHHHHHH-CSSEEEEESSGGGSCH----------------HHHHHHHHHHTTTEECCSSSC
T ss_pred             hhhhcCCCCCCcCcccCChHHHHHHh-CCCcEEEEehHhhcCH----------------HHHHHHHHHhccCceeCCCCc
Confidence                             224444433 3469999999998632                3456666666532111     


Q ss_pred             --CCCceEEEEEcCC--------------------------CCCCCccccCCCceeEEEEeCCCCHHHHHHHHHHhhc
Q 047029          339 --CGDERIIVFTTNY--------------------------KERLDPALLRPGRMDMHIHMSYLTPGGFKILAFNYLK  388 (455)
Q Consensus       339 --~~~~~ivI~TTN~--------------------------~~~Ld~allRpGR~d~~I~~~~p~~~~~~~L~~~~l~  388 (455)
                        .-.+.++|+|||-                          .+.+.|.++.  |||..+.|.+.+.++..+++...+.
T Consensus       161 ~v~~~~~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~Ii~F~~L~~~~~~~I~~~~l~  236 (315)
T d1qvra3         161 TVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQLS  236 (315)
T ss_dssp             CEECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCCCCHHHHHHHHHHHHH
T ss_pred             EecCcceEEEEecccChHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHh--cCCeeeeccchhhhhhHHHHHHHHH
Confidence              1245799999994                          2568888888  9999999999999999888876654

>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=99.35  E-value=7.9e-12  Score=124.28  Aligned_cols=173  Identities=22%  Similarity=0.265  Sum_probs=110.8

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHH------------------HhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcE
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREF------------------YSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDI  269 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~------------------~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v  269 (455)
                      .++|+++.|+.+-..+..-.++...                  .... ..++.++||.||+|||||.+|++||..++.++
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~-~~p~~niLfiGPTGvGKTElAk~LA~~~~~~~   96 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEV-ELSKSNILLIGPTGSGKTLMAQTLAKHLDIPI   96 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHT-TCCCCCEEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccc-cCCCcceeeeCCCCccHHHHHHHHHhhcccce
Confidence            5789999999988777533222111                  0111 23577899999999999999999999999999


Q ss_pred             EEEeccccCC--------hHHHHHHHHhhC------CceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcc
Q 047029          270 YDMELASLRS--------NSDLRRLLVSTG------NRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGL  335 (455)
Q Consensus       270 ~~l~~~~~~~--------~~~l~~ll~~~~------~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~  335 (455)
                      +.++++.+..        .+.+.+++....      ..+|+++||+|...+....  .....+.......+.||+.+|+.
T Consensus        97 ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~s~~--~~~~~d~a~~~V~~~lLqild~~  174 (364)
T d1um8a_          97 AISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSEN--RSITRDVSGEGVQQALLKIVEGS  174 (364)
T ss_dssp             EEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC----------------CHHHHHHHHHHHHCC
T ss_pred             eehhhhhcccchhhHhhhccchhhhhhhchhHHHHhhcccchhhhhhhhcccccc--ccccccccchHHHHhhhhhhcCc
Confidence            9999988743        466777764432      4689999999987541110  00001112334677788888852


Q ss_pred             cc----c-----CCCceEEEEEcCCC-------------------------------------------------CCCCc
Q 047029          336 WS----S-----CGDERIIVFTTNYK-------------------------------------------------ERLDP  357 (455)
Q Consensus       336 ~~----~-----~~~~~ivI~TTN~~-------------------------------------------------~~Ld~  357 (455)
                      .-    .     ...+.++|.|+|-.                                                 ..+-|
T Consensus       175 ~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~P  254 (364)
T d1um8a_         175 LVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIP  254 (364)
T ss_dssp             EEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCH
T ss_pred             eeccCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhhhhHH
Confidence            11    1     11345666676641                                                 11334


Q ss_pred             cccCCCceeEEEEeCCCCHHHHHHHHHH
Q 047029          358 ALLRPGRMDMHIHMSYLTPGGFKILAFN  385 (455)
Q Consensus       358 allRpGR~d~~I~~~~p~~~~~~~L~~~  385 (455)
                      .++  ||+|..+.|...+.+...+|+..
T Consensus       255 Ef~--gRi~~iv~f~~L~~~~l~~Il~~  280 (364)
T d1um8a_         255 ELI--GRLPVLSTLDSISLEAMVDILQK  280 (364)
T ss_dssp             HHH--TTCCEEEECCCCCHHHHHHHHHS
T ss_pred             HHH--HHhcchhhHhhhhHHHHHHHHHH
Confidence            444  59999999999999999988863

>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=99.34  E-value=3.1e-12  Score=115.80  Aligned_cols=148  Identities=18%  Similarity=0.238  Sum_probs=97.3

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc----------CCcEEEEec
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL----------KFDIYDMEL  274 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l----------~~~v~~l~~  274 (455)
                      .+|.++|-++..+++.+.|.             ...+.+++|.||||+|||++++.+|..+          +.+++.+++
T Consensus        20 ~ld~~igRd~Ei~~l~~iL~-------------r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~   86 (195)
T d1jbka_          20 KLDPVIGRDEEIRRTIQVLQ-------------RRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM   86 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHT-------------SSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECH
T ss_pred             CCCCCcCcHHHHHHHHHHHh-------------ccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeH
Confidence            35667787776666665442             2336799999999999999999999866          578999998


Q ss_pred             cccCC--------hHHHHHHHHhh---CCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCce
Q 047029          275 ASLRS--------NSDLRRLLVST---GNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDER  343 (455)
Q Consensus       275 ~~~~~--------~~~l~~ll~~~---~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~  343 (455)
                      +.+.+        +..+..++...   ..+.||||||++.++......     +.......+...|..         ++.
T Consensus        87 ~~LiAg~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~-----g~~d~~~~Lkp~L~r---------g~l  152 (195)
T d1jbka_          87 GALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKAD-----GAMDAGNMLKPALAR---------GEL  152 (195)
T ss_dssp             HHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT-----------CCCCHHHHHHHHHT---------TSC
T ss_pred             HHHhccCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCC-----CcccHHHHHHHHHhC---------CCc
Confidence            87632        23455666554   235799999999997522110     011111222222221         456


Q ss_pred             EEEEEcCCC-----CCCCccccCCCceeEEEEeCCCCHHHHHHH
Q 047029          344 IIVFTTNYK-----ERLDPALLRPGRMDMHIHMSYLTPGGFKIL  382 (455)
Q Consensus       344 ivI~TTN~~-----~~Ld~allRpGR~d~~I~~~~p~~~~~~~L  382 (455)
                      .+|++|...     -.-|+||.|  || ..|.+..|+.++-..+
T Consensus       153 ~~IgatT~eey~~~~e~d~aL~r--rF-~~I~V~Ep~~e~t~~I  193 (195)
T d1jbka_         153 HCVGATTLDEYRQYIEKDAALER--RF-QKVFVAEPSVEDTIAI  193 (195)
T ss_dssp             CEEEEECHHHHHHHTTTCHHHHT--TE-EEEECCCCCHHHHHTT
T ss_pred             eEEecCCHHHHHHHHHcCHHHHh--cC-CEeecCCCCHHHHHHH
Confidence            666655421     234999999  99 4799999999886554

>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=99.17  E-value=7.7e-11  Score=107.22  Aligned_cols=113  Identities=14%  Similarity=0.208  Sum_probs=87.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC------CcEEEEecccc-CChHHHHHHHHhhC------CceEEEEecccchhhh
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK------FDIYDMELASL-RSNSDLRRLLVSTG------NRSILVIEDIDCSIEL  307 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~------~~v~~l~~~~~-~~~~~l~~ll~~~~------~~~IL~iDEiD~l~~~  307 (455)
                      +..+|||||||||||++|..++++..      .+++.+....- -+-.+++.+.....      +..|++|||+|.+-  
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~~~~~~~~~KviIId~ad~l~--   92 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERMT--   92 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBC--
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHhhCcccCCCEEEEEeCccccc--
Confidence            56899999999999999999999872      46888775432 24566777654432      34699999999873  


Q ss_pred             hhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCCCceeEEEEeCCCCH
Q 047029          308 ENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRPGRMDMHIHMSYLTP  376 (455)
Q Consensus       308 ~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRpGR~d~~I~~~~p~~  376 (455)
                                    ....+.||..|+.-    +.+.++|++||+++.|.|++++  |+ .++.++.|..
T Consensus        93 --------------~~aqNaLLK~LEEP----p~~t~fiLit~~~~~ll~TI~S--RC-~~i~~~~p~~  140 (198)
T d2gnoa2          93 --------------QQAANAFLKALEEP----PEYAVIVLNTRRWHYLLPTIKS--RV-FRVVVNVPKE  140 (198)
T ss_dssp             --------------HHHHHHTHHHHHSC----CTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCHH
T ss_pred             --------------hhhhhHHHHHHhCC----CCCceeeeccCChhhCHHHHhc--ce-EEEeCCCchH
Confidence                          24567788888753    4668899999999999999999  88 6788887753

>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=98.98  E-value=3.2e-09  Score=107.72  Aligned_cols=70  Identities=17%  Similarity=0.258  Sum_probs=53.3

Q ss_pred             ccccCHHHHHHHHHHHHHHHHhHHHHhhh-cCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc
Q 047029          208 TLAMDPVLKQALIDDLDRFVKRREFYSRV-GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL  277 (455)
Q Consensus       208 ~l~g~~~~k~~l~~~l~~~l~~~~~~~~~-g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~  277 (455)
                      -++|+++.|+.+--.+..-.++-..-... ..-.|+|+||.||+|||||.||++||+.++.||+.++++.+
T Consensus        15 yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~f   85 (443)
T d1g41a_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKF   85 (443)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGG
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCEEEeeccee
Confidence            47899999998877776443322111111 11236799999999999999999999999999999999876

>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=98.98  E-value=1.2e-08  Score=94.80  Aligned_cols=193  Identities=16%  Similarity=0.162  Sum_probs=111.8

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCCh---
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSN---  280 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~---  280 (455)
                      ..-+.++|-++..++|.+                 ..++.++|+||+|+|||+|++.+++.++.....+++......   
T Consensus         9 ~~~~~f~GR~~el~~l~~-----------------~~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~~~~~~~~~   71 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKG-----------------LRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYI   71 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHH-----------------TCSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCC
T ss_pred             CChhhCCChHHHHHHHHh-----------------ccCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEeccccccccc
Confidence            346788887766555432                 135789999999999999999999999988888776443110   


Q ss_pred             --H-----------------------------------------------HHHHHH----HhhCCceEEEEecccchhhh
Q 047029          281 --S-----------------------------------------------DLRRLL----VSTGNRSILVIEDIDCSIEL  307 (455)
Q Consensus       281 --~-----------------------------------------------~l~~ll----~~~~~~~IL~iDEiD~l~~~  307 (455)
                        .                                               .+..++    .....+.++++||++.+.. 
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~-  150 (283)
T d2fnaa2          72 SYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVK-  150 (283)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGG-
T ss_pred             cHHHHHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcc-
Confidence              0                                               011111    1224567899999998753 


Q ss_pred             hhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEE-EcCC------CCCCCccccCCCceeEEEEeCCCCHHHHH
Q 047029          308 ENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVF-TTNY------KERLDPALLRPGRMDMHIHMSYLTPGGFK  380 (455)
Q Consensus       308 ~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~-TTN~------~~~Ld~allRpGR~d~~I~~~~p~~~~~~  380 (455)
                                 ......+..+...++..     .....++ ++..      ....+..---.||....++++..+.++..
T Consensus       151 -----------~~~~~~~~~l~~~~~~~-----~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~  214 (283)
T d2fnaa2         151 -----------LRGVNLLPALAYAYDNL-----KRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAI  214 (283)
T ss_dssp             -----------CTTCCCHHHHHHHHHHC-----TTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHH
T ss_pred             -----------cchHHHHHHHHHHHHhh-----hhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHH
Confidence                       01111222222222221     2233333 3321      11111111112466788999999999999


Q ss_pred             HHHHHhhcccCCCchHHHHHhhccccCchh------HHHhccCCHHHHHHHHHHHHH
Q 047029          381 ILAFNYLKIKSHSMFDEIEELIKEVEVTPA------EEFMKSEDADVALNGLVDFLL  431 (455)
Q Consensus       381 ~L~~~~l~~~~~~l~~ei~~ll~~~~~tpa------~~l~~~~~~~~al~~l~~~l~  431 (455)
                      +++.+.+...+.. .++++++.+...-.|.      ..+....+.+.+++.+++...
T Consensus       215 ~~l~~~~~~~~~~-~~~~~~i~~~~~G~P~~L~~~~~~~~~~~~~~~~~~~~~~~~~  270 (283)
T d2fnaa2         215 EFLRRGFQEADID-FKDYEVVYEKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYAK  270 (283)
T ss_dssp             HHHHHHHHHHTCC-CCCHHHHHHHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcCCC-HHHHHHHHHHhCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            9998877643322 2345555555555665      223345677777776665443

>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=98.92  E-value=3.1e-10  Score=106.27  Aligned_cols=59  Identities=22%  Similarity=0.392  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecccc
Q 047029          214 VLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASL  277 (455)
Q Consensus       214 ~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~  277 (455)
                      +++..+.+.+..+..+.     .+...|+|||||||||||||++|+++|++++.+++.++.+.+
T Consensus        10 ~~~~~~~~~~~~~~~~~-----~~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~~   68 (273)
T d1gvnb_          10 QFENRLNDNLEELIQGK-----KAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTF   68 (273)
T ss_dssp             HHHHHHHHHHHHHHTTC-----CCCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHH
T ss_pred             HHHHHHHHHHHHHHhcc-----cCCCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEecHHH
Confidence            44555556665554443     266778999999999999999999999999999999987654

>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=98.90  E-value=6.1e-09  Score=97.59  Aligned_cols=151  Identities=16%  Similarity=0.212  Sum_probs=91.7

Q ss_pred             cccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccCChHHHHH
Q 047029          209 LAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLRSNSDLRR  285 (455)
Q Consensus       209 l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~~~~~l~~  285 (455)
                      .+|....-+++++.+......           +..+||+||+||||+.+|+++....   ..+++.+++..+........
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~-----------~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~~   70 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCA-----------ECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAE   70 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTC-----------CSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHH
T ss_pred             eEecCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHHH
Confidence            466667777777777654333           4469999999999999999999876   45688888887754443444


Q ss_pred             HHH-----------------hhCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhc-ccccC------CC
Q 047029          286 LLV-----------------STGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDG-LWSSC------GD  341 (455)
Q Consensus       286 ll~-----------------~~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg-~~~~~------~~  341 (455)
                      +|.                 ...+...|||||||.+..                .....|++.++. .....      ..
T Consensus        71 lfg~~~~~~~~~~~~~~g~l~~a~gGtL~l~~i~~L~~----------------~~Q~~L~~~l~~~~~~~~~~~~~~~~  134 (247)
T d1ny5a2          71 LFGYEKGAFTGAVSSKEGFFELADGGTLFLDEIGELSL----------------EAQAKLLRVIESGKFYRLGGRKEIEV  134 (247)
T ss_dssp             HHCBCTTSSTTCCSCBCCHHHHTTTSEEEEESGGGCCH----------------HHHHHHHHHHHHSEECCBTCCSBEEC
T ss_pred             hcCcccCCcCCcccccCCHHHccCCCEEEEeChHhCCH----------------HHHHHHHHHHHhCCEEECCCCCceec
Confidence            442                 122356899999998743                223445555532 11110      11


Q ss_pred             ceEEEEEcCCC-------CCCCccccCCCcee-EEEEeCCCC--HHHHHHHHHHhhc
Q 047029          342 ERIIVFTTNYK-------ERLDPALLRPGRMD-MHIHMSYLT--PGGFKILAFNYLK  388 (455)
Q Consensus       342 ~~ivI~TTN~~-------~~Ld~allRpGR~d-~~I~~~~p~--~~~~~~L~~~~l~  388 (455)
                      ++-+|++|+.+       ..+++.|+.  |+. ..|.+|+..  .+....|+..++.
T Consensus       135 ~~RlI~~s~~~l~~l~~~~~f~~~L~~--~l~~~~i~lPpLreR~~Di~~l~~~~l~  189 (247)
T d1ny5a2         135 NVRILAATNRNIKELVKEGKFREDLYY--RLGVIEIEIPPLRERKEDIIPLANHFLK  189 (247)
T ss_dssp             CCEEEEEESSCHHHHHHTTSSCHHHHH--HHTTEEEECCCGGGCHHHHHHHHHHHHH
T ss_pred             CeEEEEecCCCHHHHHHcCCCcHHHHh--hcCeeeecCCChhhchhhHhhhhhhhhh
Confidence            34466777643       123444443  332 357776663  3556667777664

>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=98.29  E-value=3.8e-07  Score=81.86  Aligned_cols=113  Identities=19%  Similarity=0.200  Sum_probs=68.0

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccchhhhhhhcCCCCC
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDCSIELENRQCGGGY  316 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~l~~~~~~~~~~~~  316 (455)
                      |+|.++.++|||||+||||+++.++++.++-.++.  ...-.+    .--|.......++++||+.....          
T Consensus        49 ~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~vis--~~N~~s----~F~Lq~l~~~kv~l~dD~t~~~~----------  112 (205)
T d1tuea_          49 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVIS--FVNSTS----HFWLEPLTDTKVAMLDDATTTCW----------  112 (205)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECC--CCCSSS----CGGGGGGTTCSSEEEEEECHHHH----------
T ss_pred             CCCCceEEEEECCCCccHHHHHHHHHHHhCCEEEe--ccCCCC----CcccccccCCeEEEEeccccchH----------
Confidence            67778899999999999999999999999754432  111111    12334455668999999854321          


Q ss_pred             CCCcchhhHhhhhhhhhcccccC---C------CceEEEEEcCCC---CCCCccccCCCceeEEEEeCC
Q 047029          317 DENNSQVTLSGLLNFVDGLWSSC---G------DERIIVFTTNYK---ERLDPALLRPGRMDMHIHMSY  373 (455)
Q Consensus       317 ~~~~~~~~ls~LL~~ldg~~~~~---~------~~~ivI~TTN~~---~~Ld~allRpGR~d~~I~~~~  373 (455)
                           ...-..+-+.+||-.-+-   .      ...-+|+|||..   +.-.++|.+  |+ ..++|+.
T Consensus       113 -----~~~d~~lK~ll~G~~vsvd~KhK~~vqi~~pPliITsN~~~~~~d~~~~L~s--Ri-~~f~F~~  173 (205)
T d1tuea_         113 -----TYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLES--RI-TVFEFPN  173 (205)
T ss_dssp             -----HHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHT--SC-EEEECCS
T ss_pred             -----HHHHHHHHhccCCCeeeeecccCCcccccCCCEEEEcCCCCCccccchhhhh--eE-EEEECCC
Confidence                 111112445556531110   0      012367788843   333467888  88 5677764

>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=98.21  E-value=2.3e-06  Score=74.15  Aligned_cols=25  Identities=28%  Similarity=0.579  Sum_probs=22.7

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCc
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFD  268 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~  268 (455)
                      ++|.||||||||||++++++.++.+
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCCC
Confidence            7999999999999999999988543

>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=98.20  E-value=4.2e-07  Score=77.00  Aligned_cols=33  Identities=39%  Similarity=0.713  Sum_probs=29.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      ++.++|.|||||||||+++++|+.|++++++.+
T Consensus         2 ~k~I~l~G~~GsGKSTvak~La~~L~~~~id~~   34 (169)
T d1kaga_           2 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD   34 (169)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHTTCEEEEHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            468999999999999999999999999988654

>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=98.20  E-value=5.1e-07  Score=77.97  Aligned_cols=35  Identities=31%  Similarity=0.398  Sum_probs=31.0

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEecc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELA  275 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~  275 (455)
                      ++-++|.|||||||||+++++|+.+|.+++.++..
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~d   38 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSD   38 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCEEEecHH
Confidence            35689999999999999999999999999887653

>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=98.06  E-value=9.2e-05  Score=69.34  Aligned_cols=47  Identities=19%  Similarity=0.155  Sum_probs=34.8

Q ss_pred             cccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          209 LAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       209 l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +.|-+...++|++.|...          +-...+-+.|||++|+|||+||+.+.+..
T Consensus        22 ~~gR~~~~~~i~~~L~~~----------~~~~~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          22 CYIREYHVDRVIKKLDEM----------CDLDSFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             SCCCHHHHHHHHHHHHHH----------TTSSSEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             eeCcHHHHHHHHHHHHhc----------cCCCceEEEEECCCCCCHHHHHHHHHHhh
Confidence            457777777787776531          11123468899999999999999999874

>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=98.05  E-value=9e-07  Score=76.49  Aligned_cols=33  Identities=18%  Similarity=0.164  Sum_probs=29.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      .+.|++.|||||||||||++||+.+|.+++..+
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~~~~i~~~   39 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFNTTSAWEY   39 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCEEECCT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCCeEeee
Confidence            568999999999999999999999998887544

>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=98.00  E-value=1.2e-06  Score=75.31  Aligned_cols=30  Identities=30%  Similarity=0.493  Sum_probs=27.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .++|.|||||||||++++||+.+|+++++.
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l~~~~i~~   35 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKSGLKYINV   35 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCcEEec
Confidence            578999999999999999999999998753

>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=97.98  E-value=1.5e-06  Score=75.22  Aligned_cols=32  Identities=31%  Similarity=0.483  Sum_probs=29.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      ++++|.||||+||||+++++|+.+|+++++++
T Consensus         1 k~I~liG~~GsGKsTi~k~La~~l~~~~~d~d   32 (161)
T d1viaa_           1 KNIVFIGFMGSGKSTLARALAKDLDLVFLDSD   32 (161)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhCCCEEecC
Confidence            46889999999999999999999999999764

>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=97.91  E-value=4.3e-06  Score=71.69  Aligned_cols=34  Identities=21%  Similarity=0.318  Sum_probs=30.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~  274 (455)
                      ++-|+|.||||+||||+|++||+.++..++.++.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~~~   36 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGV   36 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCCeEEeec
Confidence            4679999999999999999999999998887764

>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=97.90  E-value=2.5e-06  Score=74.08  Aligned_cols=33  Identities=18%  Similarity=0.401  Sum_probs=29.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      .+.++|.||||+||||+++.+|+.+|+++++.|
T Consensus         2 ~~~Iil~G~~GsGKSTia~~LA~~Lg~~~id~D   34 (170)
T d1e6ca_           2 TEPIFMVGARGCGMTTVGRELARALGYEFVDTD   34 (170)
T ss_dssp             CCCEEEESCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCCCEEehh
Confidence            356889999999999999999999999998754

>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=97.85  E-value=3.3e-06  Score=72.92  Aligned_cols=30  Identities=33%  Similarity=0.552  Sum_probs=27.1

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      ++|.|+|||||||+++.+|+.+|+++++.+
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~fiD~D   33 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVGLLDTD   33 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            556699999999999999999999998765

>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=97.80  E-value=5.8e-06  Score=70.43  Aligned_cols=30  Identities=37%  Similarity=0.626  Sum_probs=26.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      ++-++|.|||||||||+|++||..++..++
T Consensus         2 ~klI~i~G~~GsGKTTva~~L~~~~~~~~~   31 (176)
T d2bdta1           2 KKLYIITGPAGVGKSTTCKRLAAQLDNSAY   31 (176)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHSSSEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCCEE
Confidence            456899999999999999999999987654

>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=97.79  E-value=5.4e-06  Score=71.06  Aligned_cols=33  Identities=30%  Similarity=0.496  Sum_probs=28.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      ++-++|.|||||||||++++||+.++..++..+
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l~~~~~~~d   38 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGD   38 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEEGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeechh
Confidence            456889999999999999999999998776543

>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=97.78  E-value=5e-06  Score=71.50  Aligned_cols=24  Identities=46%  Similarity=0.812  Sum_probs=23.0

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |+++|+||||||||+|+++++..+
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            689999999999999999999988

>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=97.73  E-value=1.2e-05  Score=69.01  Aligned_cols=29  Identities=34%  Similarity=0.430  Sum_probs=25.2

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      |.+..++|.||||+||||+++.||+.++.
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l~~   31 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAELDG   31 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHSTT
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHhCC
Confidence            33456999999999999999999999964

>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=97.72  E-value=9.5e-05  Score=69.10  Aligned_cols=60  Identities=18%  Similarity=0.233  Sum_probs=41.9

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHhhCCceEEEEecccc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVSTGNRSILVIEDIDC  303 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~~~~~~IL~iDEiD~  303 (455)
                      +.+.++.+.|||||+||||+++.+|++.+|.- ..++-+  .+.-    -|.......++++||.+.
T Consensus       100 ~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~~-~~~~~~--~~~f----~l~~l~~k~~~~~~e~~~  159 (267)
T d1u0ja_         100 KFGKRNTIWLFGPATTGKTNIAEAIAHTVPFY-GCVNWT--NENF----PFNDCVDKMVIWWEEGKM  159 (267)
T ss_dssp             CSTTCCEEEEECSTTSSHHHHHHHHHHHSSCE-EECCTT--CSSC----TTGGGSSCSEEEECSCCE
T ss_pred             CCCccEEEEEEcCCCCCHHHHHHHHHHHhcch-hhcccc--CCCc----cccccCCCEEEEEeCCCc
Confidence            34567789999999999999999999999643 222211  1111    134555678999999864

>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=97.60  E-value=1.4e-05  Score=68.34  Aligned_cols=24  Identities=25%  Similarity=0.332  Sum_probs=22.0

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .|+|.|+||+||||++++||..|+
T Consensus         8 ~I~l~G~~GsGKTTia~~La~~L~   31 (183)
T d1m8pa3           8 TIFLTGYMNSGKDAIARALQVTLN   31 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            378889999999999999999985

>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=97.60  E-value=1.9e-05  Score=69.57  Aligned_cols=32  Identities=19%  Similarity=0.287  Sum_probs=28.0

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .|.-++|.||||+||||+|+.||+.+|+..+.
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~g~~~i~   36 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDFGWVHLS   36 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            35678999999999999999999999976654

>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=97.57  E-value=2.7e-05  Score=67.87  Aligned_cols=62  Identities=18%  Similarity=0.126  Sum_probs=42.0

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEeccccCChHHHHHHHHh-hCCceEEEEeccc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELASLRSNSDLRRLLVS-TGNRSILVIEDID  302 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~~~~~~~~l~~ll~~-~~~~~IL~iDEiD  302 (455)
                      +.|.-++|.|+|||||||+|+.++..+++.++  +...+.+...+.+.+.. ..++..+++|...
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~~~~~i--~~D~~~~~~~~~~~~~~~l~~g~~vIiD~t~   74 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHV--NRDTLGSWQRCVSSCQAALRQGKRVVIDNTN   74 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGGTCEEE--EHHHHCSHHHHHHHHHHHHHTTCCEEEESCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhcCCEEE--chHHHHHHHHHHHHHHHHHHCCCCceeeCcC
Confidence            44678999999999999999999988876554  44455554444444432 2345556677554

>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=97.55  E-value=2.4e-05  Score=67.85  Aligned_cols=30  Identities=20%  Similarity=0.338  Sum_probs=26.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .++|.||||+||||+++.||+.+|+..+..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~~~i~~   31 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGIPHIST   31 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceech
Confidence            378999999999999999999999887653

>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=97.55  E-value=1.6e-05  Score=69.81  Aligned_cols=31  Identities=13%  Similarity=0.263  Sum_probs=27.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      |-.++|.|||||||||+|+.||+.+|+..+.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~~~~is   33 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQLAHIS   33 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHCCcEEe
Confidence            4468999999999999999999999988753

>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=97.52  E-value=0.0002  Score=64.59  Aligned_cols=38  Identities=24%  Similarity=0.191  Sum_probs=30.7

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      |++...-++++||||+|||+++..+|...   +..+..+..
T Consensus        22 Gi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~   62 (242)
T d1tf7a2          22 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAY   62 (242)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEES
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeec
Confidence            67778889999999999999999999886   445555543

>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=97.49  E-value=3.6e-05  Score=67.53  Aligned_cols=30  Identities=27%  Similarity=0.428  Sum_probs=26.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      -++|.||||+||||+++.||..+|+..+..
T Consensus         5 riil~G~pGSGKsT~a~~La~~~g~~~i~~   34 (190)
T d1ak2a1           5 RAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   34 (190)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            467789999999999999999999877653

>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=97.49  E-value=3.4e-05  Score=67.12  Aligned_cols=30  Identities=33%  Similarity=0.538  Sum_probs=26.9

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      .++|.|||||||||+++.||+.+|+..+.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~~~i~~   31 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGIPQIST   31 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceEch
Confidence            478999999999999999999999887754

>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=97.46  E-value=3.6e-05  Score=67.91  Aligned_cols=31  Identities=16%  Similarity=0.357  Sum_probs=27.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      ++-++|.||||+||||+|+.||+.+|+..+.
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~g~~~is   38 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKYGYTHLS   38 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHTCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeeEe
Confidence            5679999999999999999999999876653

>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=97.42  E-value=4.9e-05  Score=66.97  Aligned_cols=30  Identities=20%  Similarity=0.350  Sum_probs=26.6

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .-++|.||||+||||+|+.||+.+|+..+.
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~~~g~~~is   38 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVKDYSFVHLS   38 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            458889999999999999999999887654

>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=97.41  E-value=4.5e-05  Score=66.44  Aligned_cols=29  Identities=21%  Similarity=0.309  Sum_probs=26.3

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      ++|.||||+||||+|+.||+.+|+..+..
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~g~~~is~   31 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKYGTPHIST   31 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCceeeH
Confidence            78899999999999999999999887653

>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=97.38  E-value=5.2e-05  Score=66.95  Aligned_cols=30  Identities=17%  Similarity=0.416  Sum_probs=26.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      -++|.||||+||||+++.||..+|+..+++
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~g~~~is~   37 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHFELKHLSS   37 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHBCCEEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHCCeEEcH
Confidence            478889999999999999999999877643

>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=97.38  E-value=0.00036  Score=62.68  Aligned_cols=35  Identities=20%  Similarity=0.187  Sum_probs=27.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      |.-++|.||+|+||||.+.-||..+   |..+..+.+.
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~D   46 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGD   46 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecc
Confidence            5568899999999999999999877   4555555443

>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=97.37  E-value=1.1e-05  Score=70.56  Aligned_cols=26  Identities=31%  Similarity=0.501  Sum_probs=22.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFD  268 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~  268 (455)
                      -++|.|+||+||||+|++||..++..
T Consensus        21 vI~L~G~pGSGKTTiAk~La~~l~~~   46 (195)
T d1x6va3          21 TVWLTGLSGAGKTTVSMALEEYLVCH   46 (195)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            46788999999999999999998543

>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=97.37  E-value=0.00023  Score=66.38  Aligned_cols=112  Identities=15%  Similarity=0.176  Sum_probs=64.0

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC---------------------ChHHHHHH---HHh
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR---------------------SNSDLRRL---LVS  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~---------------------~~~~l~~l---l~~  289 (455)
                      |++..+-..|+||||||||+++..++...   +..++.+|...--                     +..+..++   +..
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~~  135 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIR  135 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHHh
Confidence            78888889999999999999986665544   6666666654321                     11222222   233


Q ss_pred             hCCceEEEEecccchhhhhhhcCCC-CCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCC
Q 047029          290 TGNRSILVIEDIDCSIELENRQCGG-GYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY  351 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~~~~~~~~~~-~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~  351 (455)
                      .....+|+||-+..+.+...-.... ..........++.++..+-.+...  .++.+|+| |+
T Consensus       136 ~~~~~liIiDSi~al~~~~E~e~~~~~~~~~~~a~~l~~~l~~l~~~~~~--~~~~vi~~-NQ  195 (269)
T d1mo6a1         136 SGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGALNN--SGTTAIFI-NQ  195 (269)
T ss_dssp             TTCEEEEEEECSTTCCCHHHHC-------CCHHHHHHHHHHHHHHHHHHH--HTCEEEEE-EC
T ss_pred             cCCCCEEEEecccccccHHHhccccccchHHHHHHHHHHHHHHHHHHHhh--cCchhhhh-he
Confidence            4567899999999887421111111 111122334556666655544333  23566666 54

>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=97.37  E-value=5.3e-05  Score=66.01  Aligned_cols=29  Identities=24%  Similarity=0.481  Sum_probs=25.7

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      ++|.||||+||||+++.||..+|+..+..
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g~~~i~~   33 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFHAAHLAT   33 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceEec
Confidence            67889999999999999999998776654

>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=97.37  E-value=0.00019  Score=66.80  Aligned_cols=70  Identities=16%  Similarity=0.268  Sum_probs=47.8

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc---------------------CChHHHHHH---HHh
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL---------------------RSNSDLRRL---LVS  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~---------------------~~~~~l~~l---l~~  289 (455)
                      |++..+-..|+||||||||+++-.+|...   +..+++++...-                     .+..+..++   +..
T Consensus        50 Gi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l~~  129 (263)
T d1u94a1          50 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR  129 (263)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHHHHHHhCCCHHHEEEecCCCHHHHHHHHHHHHh
Confidence            66777789999999999999998887665   566666664322                     111222222   233


Q ss_pred             hCCceEEEEecccchhh
Q 047029          290 TGNRSILVIEDIDCSIE  306 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~~  306 (455)
                      .....+|+||-+..+.+
T Consensus       130 ~~~~~liViDSi~al~~  146 (263)
T d1u94a1         130 SGAVDVIVVDSVAALTP  146 (263)
T ss_dssp             HTCCSEEEEECGGGCCC
T ss_pred             cCCCCEEEEECcccccc
Confidence            35678999999988763

>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=97.37  E-value=5.5e-05  Score=66.35  Aligned_cols=30  Identities=20%  Similarity=0.351  Sum_probs=26.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .-++|.||||+||||.|+.||+.+|+..+.
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~g~~~i~   31 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKYGYTHLS   31 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCceEc
Confidence            357999999999999999999999876653

>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=97.36  E-value=0.00021  Score=66.63  Aligned_cols=113  Identities=15%  Similarity=0.182  Sum_probs=64.7

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC---------------------ChHHHHHHH---Hh
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR---------------------SNSDLRRLL---VS  289 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~---------------------~~~~l~~ll---~~  289 (455)
                      |++..+-..+|||||||||+++..++...   |..++++|...--                     +..+..+++   ..
T Consensus        53 Gip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~  132 (268)
T d1xp8a1          53 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVR  132 (268)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHHHHHHHHHh
Confidence            56777789999999999999998887765   6667777654321                     112222222   22


Q ss_pred             hCCceEEEEecccchhhhhhhcCC-CCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCC
Q 047029          290 TGNRSILVIEDIDCSIELENRQCG-GGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNY  351 (455)
Q Consensus       290 ~~~~~IL~iDEiD~l~~~~~~~~~-~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~  351 (455)
                      .....+|++|-+..+.+-..-... ...........++.++..+-.....  .+..+|+|..-
T Consensus       133 ~~~~~liIiDSi~al~~r~e~~~~~~~~~~~~~a~~l~~~lr~l~~~~~~--~~~~vi~tNQv  193 (268)
T d1xp8a1         133 SGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTAILSK--TGTAAIFINQV  193 (268)
T ss_dssp             TTCCSEEEEECTTTCCCSTTC--------CCHHHHHHHHHHHHHHHHHTT--TCCEEEEEEEC
T ss_pred             cCCCcEEEEecccccccHHHHcccccchhHHHHHHHHHHHHHHHHhhhhh--cCCeEEEEeEE
Confidence            345789999999988641111100 0001122344455566555554433  44666666443

>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=97.36  E-value=0.00067  Score=61.84  Aligned_cols=98  Identities=18%  Similarity=0.203  Sum_probs=58.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc-----CC------------cEEE--Eeccc-cCC--------hHHHHHHHHhhCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL-----KF------------DIYD--MELAS-LRS--------NSDLRRLLVSTGN  292 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l-----~~------------~v~~--l~~~~-~~~--------~~~l~~ll~~~~~  292 (455)
                      .+.++|+||.++|||++++++|-..     |.            +-+.  +...+ +..        -.++..++.....
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d~I~~~~~~~d~~~~~~S~F~~E~~~~~~il~~~~~  120 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANILHNATE  120 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCCEEEEEEC-----------CHHHHHHHHHHHHHCCT
T ss_pred             ceEEEEeccCchhhHHHHHHHHHHHHHHHcCCeEecCceecccchhheeEEccCcccccchhHHHHHHHHHHHHHHhccc
Confidence            5689999999999999999998644     21            1111  11111 111        1456677778888


Q ss_pred             ceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCC
Q 047029          293 RSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKER  354 (455)
Q Consensus       293 ~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~  354 (455)
                      +++++|||+..--           +..+.......++..+...     ....+|+||.+.+.
T Consensus       121 ~sLvliDE~~~gT-----------~~~eg~~l~~a~l~~l~~~-----~~~~~i~tTH~~~l  166 (234)
T d1wb9a2         121 YSLVLMDEIGRGT-----------STYDGLSLAWACAENLANK-----IKALTLFATHYFEL  166 (234)
T ss_dssp             TEEEEEESCCCCS-----------SSSHHHHHHHHHHHHHHHT-----TCCEEEEECSCGGG
T ss_pred             ccEEeecccccCC-----------ChhhhhHHHHHhhhhhhcc-----ccceEEEecchHHH
Confidence            9999999997521           1222223333455544221     23567888876543

>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=97.34  E-value=7.1e-05  Score=66.54  Aligned_cols=28  Identities=36%  Similarity=0.605  Sum_probs=25.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      -+.+.||||+||+|+++.||+.+|++.+
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl~~i   32 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQWHLL   32 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            6788899999999999999999998875

>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=97.31  E-value=5.8e-05  Score=63.17  Aligned_cols=25  Identities=32%  Similarity=0.384  Sum_probs=21.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ++-++|+||||+||||+|+.++...
T Consensus         2 kklIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           2 KKIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            4568999999999999999987665

>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=97.29  E-value=6.8e-05  Score=65.00  Aligned_cols=29  Identities=17%  Similarity=0.248  Sum_probs=26.0

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .++|.||||+||||+++.||+.+++..+.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~~~i~   30 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGIPQIS   30 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            36889999999999999999999987764

>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=97.27  E-value=0.00043  Score=62.03  Aligned_cols=35  Identities=26%  Similarity=0.308  Sum_probs=27.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      ++-++|.||+|+||||.+.-||.++   |..+.-+.+.
T Consensus         6 ~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~D   43 (207)
T d1okkd2           6 GRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGD   43 (207)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEec
Confidence            5668999999999999999999877   4555544443

>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=97.22  E-value=0.00081  Score=58.91  Aligned_cols=27  Identities=30%  Similarity=0.416  Sum_probs=23.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDI  269 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v  269 (455)
                      -+.|.||+|+|||++++.+++..+..+
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~   28 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIF   28 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCce
Confidence            488999999999999999999886544

>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=97.20  E-value=0.00072  Score=60.48  Aligned_cols=34  Identities=24%  Similarity=0.283  Sum_probs=26.7

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      +-++|.||+|+||||.+.-||..+   |..+..+.+.
T Consensus        11 ~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~D   47 (207)
T d1ls1a2          11 NLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAAD   47 (207)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecc
Confidence            347889999999999999999877   5566555543

>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=97.20  E-value=9.9e-05  Score=65.90  Aligned_cols=28  Identities=29%  Similarity=0.508  Sum_probs=24.8

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      +.+-||||+||||+|+.||..+|++.++
T Consensus         6 IaIdGp~GsGKgT~ak~La~~lg~~~is   33 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDFGFTYLD   33 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            4567999999999999999999988664

>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=97.14  E-value=0.00061  Score=60.39  Aligned_cols=37  Identities=22%  Similarity=0.129  Sum_probs=27.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEe
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDME  273 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~  273 (455)
                      |+++..-++|+||||+|||+++..+|...    +..++.+.
T Consensus        22 Gi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s   62 (242)
T d1tf7a1          22 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVT   62 (242)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCccccc
Confidence            67888889999999999999997655322    44555444

>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=97.13  E-value=0.00011  Score=63.02  Aligned_cols=26  Identities=19%  Similarity=0.337  Sum_probs=23.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      +-+++.||||+||||+++.|+..++.
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~   27 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRK   27 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            56899999999999999999998843

>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=97.12  E-value=0.00077  Score=61.87  Aligned_cols=29  Identities=28%  Similarity=0.239  Sum_probs=23.3

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |..+..-.+|+|+||+|||+++..+|..+
T Consensus        25 G~~pg~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          25 NMVAGTVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CccCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            44445568899999999999999988764

>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=97.10  E-value=0.00078  Score=60.52  Aligned_cols=34  Identities=18%  Similarity=0.182  Sum_probs=26.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      |.-++|.||+|+||||.+.-||..+   +..+..+.+
T Consensus        11 p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~   47 (213)
T d1vmaa2          11 PFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAA   47 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEee
Confidence            5568999999999999999999877   445444443

>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=97.07  E-value=0.00021  Score=60.34  Aligned_cols=31  Identities=19%  Similarity=0.148  Sum_probs=25.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      -+.+.|+||||||||++.|++++   |..+..+.
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~   37 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIK   37 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEec
Confidence            57899999999999999999987   55555443

>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=96.99  E-value=0.001  Score=65.47  Aligned_cols=85  Identities=22%  Similarity=0.331  Sum_probs=57.1

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCce-eEEECCCCCChHHHHHHHHHHcC---CcEEEEecc-cc-
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRG-YLLYGPPGTGKSSLIAAMANYLK---FDIYDMELA-SL-  277 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg-~LL~GPpGTGKTsla~alA~~l~---~~v~~l~~~-~~-  277 (455)
                      .+++++...+...+.+.+.+.    .           ++| +|+.||.|+||||++.++.++++   .+++.++-. +. 
T Consensus       135 ~~l~~LG~~~~~~~~l~~l~~----~-----------~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~  199 (401)
T d1p9ra_         135 LDLHSLGMTAHNHDNFRRLIK----R-----------PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFD  199 (401)
T ss_dssp             CCGGGSCCCHHHHHHHHHHHT----S-----------SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSC
T ss_pred             hhhhhhcccHHHHHHHHHHHh----h-----------hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCcccc
Confidence            468899998887776655432    1           445 78889999999999999999883   456655321 00 


Q ss_pred             -----------CChHHHHHHHHhh--CCceEEEEecccc
Q 047029          278 -----------RSNSDLRRLLVST--GNRSILVIEDIDC  303 (455)
Q Consensus       278 -----------~~~~~l~~ll~~~--~~~~IL~iDEiD~  303 (455)
                                 .........+..+  ..|.||+|.||..
T Consensus       200 ~~~~~q~~v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd  238 (401)
T d1p9ra_         200 IDGIGQTQVNPRVDMTFARGLRAILRQDPDVVMVGEIRD  238 (401)
T ss_dssp             CSSSEEEECBGGGTBCHHHHHHHHGGGCCSEEEESCCCS
T ss_pred             cCCCCeeeecCCcCCCHHHHHHHHHhhcCCEEEecCcCC
Confidence                       1112344444333  3699999999974

>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=96.95  E-value=0.0008  Score=62.11  Aligned_cols=28  Identities=25%  Similarity=0.383  Sum_probs=23.7

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHcC
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +...-+.+.||+|+|||||++.+++.+.
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~gl~~   69 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPRFYD   69 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHhcCC
Confidence            3345699999999999999999998773

>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=96.93  E-value=0.00034  Score=61.36  Aligned_cols=25  Identities=24%  Similarity=0.485  Sum_probs=22.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      --+++.|+||+||||+|++||++++
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l~   27 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYLN   27 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3588999999999999999999884

>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=96.92  E-value=0.00087  Score=55.02  Aligned_cols=34  Identities=21%  Similarity=0.292  Sum_probs=26.9

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcEEEEecc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELA  275 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~  275 (455)
                      +..+|.+|.|+|||.++-.++...+..++.+-..
T Consensus         9 ~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~P~   42 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPS   42 (136)
T ss_dssp             EEEEEECCTTSCTTTHHHHHHHTTTCCEEEEESC
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEcCh
Confidence            5679999999999999877777777777665443

>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=96.92  E-value=0.0017  Score=58.12  Aligned_cols=34  Identities=24%  Similarity=0.329  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      |.-++|.||+|+||||.+.-||..+   |..+-.+.+
T Consensus        12 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~   48 (211)
T d1j8yf2          12 PYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGA   48 (211)
T ss_dssp             SEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEEC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEe
Confidence            4568889999999999999998877   445444443

>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=96.91  E-value=0.0051  Score=50.64  Aligned_cols=22  Identities=18%  Similarity=0.276  Sum_probs=19.5

Q ss_pred             eEEECCCCCChHHHHHHHHHHc
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ++|.|+||+|||||+..+++.-
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999998643

>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=96.84  E-value=0.00039  Score=62.14  Aligned_cols=28  Identities=32%  Similarity=0.238  Sum_probs=24.8

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHH
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      |++..+-++|+||||||||+++..+|..
T Consensus        30 Gi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          30 GVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            6888888999999999999999888754

>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=96.83  E-value=0.0011  Score=63.31  Aligned_cols=62  Identities=16%  Similarity=0.319  Sum_probs=41.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC--CcEEEEecc-cc-------------CChHHHHHHHHhh--CCceEEEEeccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK--FDIYDMELA-SL-------------RSNSDLRRLLVST--GNRSILVIEDID  302 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~--~~v~~l~~~-~~-------------~~~~~l~~ll~~~--~~~~IL~iDEiD  302 (455)
                      ++++|+.||+|+||||+++|++++..  ..++.++-. ++             ...-.+.+++...  .+|..|++.|+-
T Consensus       166 ~~nili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~~lR~~pd~iivgEiR  245 (323)
T d1g6oa_         166 GKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGELR  245 (323)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEESCCC
T ss_pred             CCCEEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccchhHHHHHHHHhccCCCcccCCccC
Confidence            56899999999999999999999883  334443211 11             1122344444333  368999999985

>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=96.82  E-value=0.0018  Score=59.65  Aligned_cols=27  Identities=22%  Similarity=0.444  Sum_probs=23.5

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +...-+-|.||+|+|||||++.|++.+
T Consensus        39 ~~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          39 PAGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhccc
Confidence            334569999999999999999999877

>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=96.77  E-value=0.0029  Score=57.72  Aligned_cols=27  Identities=22%  Similarity=0.310  Sum_probs=23.5

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHcC
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ...-+-+.||+|+|||||++.+++.+.
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            345699999999999999999999873

>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=96.75  E-value=0.00034  Score=60.73  Aligned_cols=29  Identities=21%  Similarity=0.172  Sum_probs=25.9

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |+++.+-++++||||+|||+++..+|...
T Consensus        19 Gi~~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          19 GIETGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcCCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            67788889999999999999999998764

>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=96.75  E-value=0.0011  Score=59.09  Aligned_cols=24  Identities=42%  Similarity=0.618  Sum_probs=21.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      -++|.||+|+|||+|++.+.....
T Consensus         4 livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCC
Confidence            478999999999999999999864

>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=96.73  E-value=0.00094  Score=60.07  Aligned_cols=29  Identities=24%  Similarity=0.336  Sum_probs=25.4

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |++..+-++++||||||||+++-.+|...
T Consensus        32 Glp~G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          32 GIETQAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CccCCEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            57777789999999999999999888654

>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=96.72  E-value=0.003  Score=57.95  Aligned_cols=27  Identities=33%  Similarity=0.417  Sum_probs=23.3

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ++..-+-|.||+|+|||||++.+++.+
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            334568999999999999999999877

>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=96.70  E-value=0.0015  Score=58.54  Aligned_cols=29  Identities=21%  Similarity=0.108  Sum_probs=25.8

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |++..+-++++||||||||+++..+|...
T Consensus        33 Gip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          33 GIESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            78888889999999999999999998643

>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=96.70  E-value=0.00059  Score=58.42  Aligned_cols=25  Identities=32%  Similarity=0.472  Sum_probs=22.4

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      -+++.|+||+||||+++.+|..|+.
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~   27 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4688999999999999999999843

>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=96.68  E-value=0.0026  Score=54.21  Aligned_cols=21  Identities=33%  Similarity=0.716  Sum_probs=19.0

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      +++.|+||+|||+|+..+.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            789999999999999998764

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {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: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=96.68  E-value=0.0039  Score=56.15  Aligned_cols=95  Identities=16%  Similarity=0.232  Sum_probs=56.4

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc-----CC------------cEEEEec--c-ccCC--------hHHHHHHHHhhCCc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL-----KF------------DIYDMEL--A-SLRS--------NSDLRRLLVSTGNR  293 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l-----~~------------~v~~l~~--~-~~~~--------~~~l~~ll~~~~~~  293 (455)
                      +.++|+||...|||++++++|-..     |.            +-+....  . ++..        -.++..++.....+
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~I~~~~~~~d~~~~~~StF~~el~~~~~il~~~~~~  115 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALILKEATEN  115 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSEEEEECCC------CCSHHHHHHHHHHHHHHHCCTT
T ss_pred             cEEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecceEEEEECCCccccCCccHHHHhHHHHHHHhccCCCC
Confidence            468999999999999999987643     21            1111111  1 1111        15667777777889


Q ss_pred             eEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCC
Q 047029          294 SILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKE  353 (455)
Q Consensus       294 ~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~  353 (455)
                      ++++|||+..--.           ..+.......+++.+-..      +..+++||++.+
T Consensus       116 sLvliDE~~~gT~-----------~~eg~ala~aile~L~~~------~~~~i~tTH~~e  158 (224)
T d1ewqa2         116 SLVLLDEVGRGTS-----------SLDGVAIATAVAEALHER------RAYTLFATHYFE  158 (224)
T ss_dssp             EEEEEESTTTTSC-----------HHHHHHHHHHHHHHHHHH------TCEEEEECCCHH
T ss_pred             cEEeecccccCcc-----------hhhhcchHHHHHHHHhhc------CcceEEeeechh
Confidence            9999999975311           112223333455554332      245788888754

>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=96.59  E-value=0.0065  Score=51.61  Aligned_cols=62  Identities=26%  Similarity=0.315  Sum_probs=42.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCC--------------------cEEEEeccccCChHHHHHH-HHh-hCCceEEEEec
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKF--------------------DIYDMELASLRSNSDLRRL-LVS-TGNRSILVIED  300 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~--------------------~v~~l~~~~~~~~~~l~~l-l~~-~~~~~IL~iDE  300 (455)
                      -++|.|+=|+|||++++++++.+|.                    .++-+|+--+.+..++..+ +.+ ....+|++||=
T Consensus        35 ii~L~G~LGaGKTtfvr~~~~~lg~~~~V~SPTF~l~~~Y~~~~~~i~H~DlYRl~~~~El~~lg~~e~~~~~~i~~IEW  114 (158)
T d1htwa_          35 MVYLNGDLGAGKTTLTRGMLQGIGHQGNVKSPTYTLVEEYNIAGKMIYHFDLYRLADPEELEFMGIRDYFNTDSICLIEW  114 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTCCSCCCCCTTTCEEEEEETTEEEEEEECTTCSCTTHHHHSTHHHHHSSSCEEEEES
T ss_pred             EEEEecCCCccHHHHHHHHHhhcccccccCCCceEEEEeeccCCceEEEEEEeccCChhhhhhCCchhHhccCCEEEEEC
Confidence            4889999999999999999999963                    2444455555555555543 222 23457888876


Q ss_pred             ccch
Q 047029          301 IDCS  304 (455)
Q Consensus       301 iD~l  304 (455)
                      .+.+
T Consensus       115 pe~~  118 (158)
T d1htwa_         115 SEKG  118 (158)
T ss_dssp             GGGG
T ss_pred             chhh
Confidence            5544

>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=96.58  E-value=0.0012  Score=55.78  Aligned_cols=22  Identities=18%  Similarity=0.410  Sum_probs=19.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -+++.|+||+|||+|+..+.+.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4899999999999999998764

>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=96.58  E-value=0.003  Score=53.46  Aligned_cols=23  Identities=13%  Similarity=0.329  Sum_probs=20.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .-++|.|.||+|||+|+.++.+.
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35999999999999999999864

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

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: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=96.55  E-value=0.0026  Score=51.34  Aligned_cols=24  Identities=21%  Similarity=0.196  Sum_probs=17.8

Q ss_pred             CceeEEECCCCCChHHHH-HHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLI-AAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla-~alA~~  264 (455)
                      .+.++|++|+|+|||..+ .++...
T Consensus         7 ~~~~il~~~tGsGKT~~~~~~~~~~   31 (140)
T d1yksa1           7 GMTTVLDFHPGAGKTRRFLPQILAE   31 (140)
T ss_dssp             TCEEEECCCTTSSTTTTHHHHHHHH
T ss_pred             CCcEEEEcCCCCChhHHHHHHHHHH
Confidence            567999999999999555 344433

>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=96.54  E-value=0.0012  Score=58.95  Aligned_cols=36  Identities=22%  Similarity=0.350  Sum_probs=28.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc----CCcEEEEeccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMELAS  276 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~~~  276 (455)
                      +.-++|+|.||+||||++++++..+    +.+++.++...
T Consensus        24 g~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~   63 (208)
T d1m7ga_          24 GLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDN   63 (208)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchH
Confidence            3458999999999999999999866    56777666544

>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=96.40  E-value=0.0011  Score=57.77  Aligned_cols=28  Identities=32%  Similarity=0.503  Sum_probs=24.2

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCCcE
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKFDI  269 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~~v  269 (455)
                      |-++|.||+|+|||+|++.|++.....+
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~   29 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCcce
Confidence            4589999999999999999999985443

>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=96.38  E-value=0.0019  Score=58.62  Aligned_cols=25  Identities=32%  Similarity=0.506  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+-|.||+|||||||++.++..+
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            4458899999999999999999877

>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=96.36  E-value=0.0045  Score=52.19  Aligned_cols=21  Identities=33%  Similarity=0.662  Sum_probs=19.1

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      ++|.|+||+|||+|+..+.+.
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            788999999999999999863

>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=96.31  E-value=0.0049  Score=56.43  Aligned_cols=38  Identities=18%  Similarity=0.100  Sum_probs=29.5

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc----CCcEEEEec
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL----KFDIYDMEL  274 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l----~~~v~~l~~  274 (455)
                      |..+..-++|.|+||+|||+++..+|..+    |.++..+.+
T Consensus        31 G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~   72 (277)
T d1cr2a_          31 GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAML   72 (277)
T ss_dssp             SBCTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEES
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeee
Confidence            56666679999999999999998888542    667766654

>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=96.25  E-value=0.0023  Score=54.91  Aligned_cols=32  Identities=16%  Similarity=0.297  Sum_probs=24.9

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcC---CcEEEEec
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLK---FDIYDMEL  274 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~---~~v~~l~~  274 (455)
                      -+-+.||+|+||||+|++|+..++   .....+..
T Consensus        24 iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~~   58 (198)
T d1rz3a_          24 VLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHM   58 (198)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhccccccceeccc
Confidence            466899999999999999999874   44444443

>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=96.25  E-value=0.0018  Score=62.64  Aligned_cols=37  Identities=30%  Similarity=0.320  Sum_probs=26.5

Q ss_pred             cCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHH
Q 047029          211 MDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       211 g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      ..+.++..+...+.                .+-.+|.||||||||+++..+..
T Consensus       149 ~~~~Q~~A~~~al~----------------~~~~vI~G~pGTGKTt~i~~~l~  185 (359)
T d1w36d1         149 EINWQKVAAAVALT----------------RRISVISGGPGTGKTTTVAKLLA  185 (359)
T ss_dssp             SCCHHHHHHHHHHT----------------BSEEEEECCTTSTHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHc----------------CCeEEEEcCCCCCceehHHHHHH
Confidence            45567766655443                45789999999999998865443

>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=96.24  E-value=0.0062  Score=55.33  Aligned_cols=25  Identities=28%  Similarity=0.482  Sum_probs=22.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+-|.||+|+|||||++.++..+
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC
Confidence            3458899999999999999999887

>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=96.23  E-value=0.0048  Score=55.72  Aligned_cols=26  Identities=23%  Similarity=0.591  Sum_probs=22.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+-|.||+|+||||++++++..+.
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            33588999999999999999999873

>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=96.22  E-value=0.0043  Score=52.50  Aligned_cols=22  Identities=32%  Similarity=0.451  Sum_probs=19.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -+++.|++|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999999854

>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=96.14  E-value=0.011  Score=49.54  Aligned_cols=22  Identities=27%  Similarity=0.425  Sum_probs=19.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -++|.|++|+|||+|+..+.+.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999999874

>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=96.08  E-value=0.0053  Score=51.94  Aligned_cols=21  Identities=29%  Similarity=0.460  Sum_probs=19.3

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      +++.|++|+|||+|+..+.+.
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999999864

>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=96.03  E-value=0.0027  Score=53.71  Aligned_cols=31  Identities=13%  Similarity=0.231  Sum_probs=25.2

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      -+-+.|++|+|||||+..++.+|   |..+..+.
T Consensus         3 ii~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik   36 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   36 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            45689999999999999999987   55565553

>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=96.02  E-value=0.0085  Score=52.27  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=21.0

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      |.|+|.|+||+|||+|+.++.+.
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            57999999999999999999873

>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=96.02  E-value=0.011  Score=49.97  Aligned_cols=20  Identities=30%  Similarity=0.501  Sum_probs=18.6

Q ss_pred             eEEECCCCCChHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~  263 (455)
                      ++|.|.+|+|||+|+..+.+
T Consensus         7 ivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999875

>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=96.01  E-value=0.0056  Score=51.77  Aligned_cols=21  Identities=43%  Similarity=0.703  Sum_probs=18.6

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      ++|.|++|+|||+|+..+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            688999999999999998753

>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=96.01  E-value=0.011  Score=49.57  Aligned_cols=21  Identities=29%  Similarity=0.496  Sum_probs=19.3

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      +++.|++|+|||+|+..+.+.
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999999874

>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=95.95  E-value=0.013  Score=48.00  Aligned_cols=21  Identities=29%  Similarity=0.510  Sum_probs=19.4

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      ++|.|+||+|||+|+..+.+.
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999874

>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=95.93  E-value=0.0069  Score=51.44  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=19.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -++|.|.+|+|||+|+..+.+.
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999998763

>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=95.91  E-value=0.014  Score=49.18  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=19.1

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      -+++.|+||+|||+|+..+.+
T Consensus        18 kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999998855

>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=95.90  E-value=0.004  Score=52.79  Aligned_cols=21  Identities=29%  Similarity=0.528  Sum_probs=19.4

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      ++|.|++|+|||+|++.+.+.
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999999873

>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=95.86  E-value=0.0017  Score=57.59  Aligned_cols=29  Identities=21%  Similarity=0.217  Sum_probs=25.6

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |++...-++|+||||+|||+++..+|..+
T Consensus        30 Gl~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          30 GLESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            47777789999999999999999999765

>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=95.80  E-value=0.0031  Score=55.98  Aligned_cols=32  Identities=25%  Similarity=0.260  Sum_probs=25.5

Q ss_pred             cee--EEECCCCCChHHHHHHHHHHc---CCcEEEEe
Q 047029          242 RGY--LLYGPPGTGKSSLIAAMANYL---KFDIYDME  273 (455)
Q Consensus       242 rg~--LL~GPpGTGKTsla~alA~~l---~~~v~~l~  273 (455)
                      ||.  .|.||.|+||||+++.|++.|   |.++..+.
T Consensus         2 rG~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~~   38 (209)
T d1nn5a_           2 RGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLR   38 (209)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            454  445999999999999999987   67776654

>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=95.80  E-value=0.01  Score=49.06  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=19.9

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -++|.|+||+|||||+.++.+.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999774

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.79  E-value=0.0089  Score=53.32  Aligned_cols=51  Identities=14%  Similarity=0.227  Sum_probs=32.0

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC---CCceeEEECCCCCChHHH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKA---WKRGYLLYGPPGTGKSSL  257 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~---~~rg~LL~GPpGTGKTsl  257 (455)
                      .+|+++..++.+.+.|.+ ..  +..+...+...++   ..+.+++..|+|||||..
T Consensus        12 ~sF~~l~L~~~l~~~L~~-~g--~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTla   65 (218)
T d2g9na1          12 DSFDDMNLSESLLRGIYA-YG--FEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTAT   65 (218)
T ss_dssp             CCGGGSCCCHHHHHHHHH-HT--CCSCCHHHHHHHHHHHHTCCEEEECCTTSSHHHH
T ss_pred             CCHHHCCCCHHHHHHHHH-CC--CCCCCHHHHHHHHHHHcCCCEEEEcccchhhhhh
Confidence            389999999888877743 11  1111111221111   146899999999999954

>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=95.78  E-value=0.0076  Score=50.46  Aligned_cols=20  Identities=30%  Similarity=0.519  Sum_probs=18.5

Q ss_pred             eEEECCCCCChHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~  263 (455)
                      +++.|.+|+|||+|+..+.+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68899999999999999985

>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=95.77  E-value=0.0027  Score=54.72  Aligned_cols=25  Identities=28%  Similarity=0.549  Sum_probs=22.3

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      +-++|.||+|+||||+++.+++...
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            4588999999999999999998874

>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=95.74  E-value=0.012  Score=49.76  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=19.3

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      -++|.|.||+|||+|+..+.+
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            389999999999999999876

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {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: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.72  E-value=0.0056  Score=54.92  Aligned_cols=24  Identities=33%  Similarity=0.546  Sum_probs=18.4

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      .+.+++.+|+|+|||..+...+-.
T Consensus        58 g~~~~i~apTGsGKT~~~~~~~~~   81 (237)
T d1gkub1          58 KESFAATAPTGVGKTSFGLAMSLF   81 (237)
T ss_dssp             TCCEECCCCBTSCSHHHHHHHHHH
T ss_pred             CCCEEEEecCCChHHHHHHHHHHH
Confidence            467999999999999765554433

>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=95.69  E-value=0.016  Score=50.09  Aligned_cols=24  Identities=25%  Similarity=0.562  Sum_probs=21.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      ...++|.|+||+|||||+.++.+.
T Consensus         3 ~p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           3 QPSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            347999999999999999999875

>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=95.66  E-value=0.017  Score=49.07  Aligned_cols=21  Identities=38%  Similarity=0.651  Sum_probs=19.3

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      -+++.|++|+|||+|+..+.+
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999999886

>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=95.64  E-value=0.0035  Score=54.32  Aligned_cols=30  Identities=23%  Similarity=0.346  Sum_probs=25.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .+|+||.||+|+|||+++.++... |..++.
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~-g~~lv~   43 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR-GHRLIA   43 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT-TCEEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEEe
Confidence            579999999999999999998875 666553

>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=95.64  E-value=0.013  Score=49.23  Aligned_cols=20  Identities=35%  Similarity=0.532  Sum_probs=18.7

Q ss_pred             eEEECCCCCChHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~  263 (455)
                      ++|.|.+|+|||+|+..+.+
T Consensus         7 i~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999886

>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=95.64  E-value=0.02  Score=53.18  Aligned_cols=37  Identities=24%  Similarity=0.241  Sum_probs=27.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc------CCcEEEEecccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL------KFDIYDMELASL  277 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l------~~~v~~l~~~~~  277 (455)
                      |--+-|.||+|+||||++..+...+      +..+..+...++
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Ddf   69 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   69 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             CEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCC
Confidence            4345578999999999999988775      345666666554

>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=95.63  E-value=0.022  Score=47.59  Aligned_cols=22  Identities=23%  Similarity=0.333  Sum_probs=19.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -++|.|++|+|||+|+..+...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999999764

>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=95.62  E-value=0.0073  Score=51.16  Aligned_cols=20  Identities=40%  Similarity=0.748  Sum_probs=18.6

Q ss_pred             eEEECCCCCChHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~  263 (455)
                      ++|.|.||+|||+|+..+.+
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999875

>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=95.60  E-value=0.016  Score=48.55  Aligned_cols=21  Identities=29%  Similarity=0.483  Sum_probs=19.2

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      +++.|.+|+|||+|+..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999998764

>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=95.43  E-value=0.004  Score=54.78  Aligned_cols=25  Identities=28%  Similarity=0.242  Sum_probs=22.2

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      -+-+.||+|+||||++++++..++.
T Consensus         4 iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           4 LIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhch
Confidence            4568899999999999999999864

>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=95.42  E-value=0.0063  Score=51.18  Aligned_cols=21  Identities=38%  Similarity=0.599  Sum_probs=19.1

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      +++.|+||+|||+|+.++.+.
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998864

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {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: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.32  E-value=0.086  Score=45.85  Aligned_cols=50  Identities=20%  Similarity=0.289  Sum_probs=29.5

Q ss_pred             CCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC---CCceeEEECCCCCChHHH
Q 047029          205 TFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKA---WKRGYLLYGPPGTGKSSL  257 (455)
Q Consensus       205 tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~---~~rg~LL~GPpGTGKTsl  257 (455)
                      +|+++...+.+.+.|.+. . | ..|.--++..++   ..+.+++.+|+|+|||..
T Consensus         2 sF~~l~L~~~l~~~L~~~-g-~-~~pt~iQ~~aip~il~g~dvi~~a~tGsGKTla   54 (206)
T d1s2ma1           2 TFEDFYLKRELLMGIFEA-G-F-EKPSPIQEEAIPVAITGRDILARAKNGTGKTAA   54 (206)
T ss_dssp             CGGGGCCCHHHHHHHHHT-T-C-CSCCHHHHHHHHHHHHTCCEEEECCTTSCHHHH
T ss_pred             ChHHcCCCHHHHHHHHHC-C-C-CCCCHHHHHHHHHHHcCCCEEEecCCcchhhhh
Confidence            688888888877776553 0 0 011000111110   146799999999999943

>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=95.31  E-value=0.0066  Score=53.87  Aligned_cols=30  Identities=23%  Similarity=0.607  Sum_probs=23.8

Q ss_pred             eEEECCCCCChHHHHHHHHHHc--CCcEEEEe
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL--KFDIYDME  273 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l--~~~v~~l~  273 (455)
                      +++.||+|+|||||+.++.+.+  +..+..++
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~~~~~~~ivn   34 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVN   34 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTTTSCEEEEE
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhCCeEEEEe
Confidence            6889999999999999999876  34444443

>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=95.30  E-value=0.0078  Score=50.50  Aligned_cols=20  Identities=30%  Similarity=0.471  Sum_probs=18.7

Q ss_pred             eEEECCCCCChHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~  263 (455)
                      ++|.|+||+|||+|+..+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999886

>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=95.21  E-value=0.018  Score=48.30  Aligned_cols=21  Identities=29%  Similarity=0.512  Sum_probs=18.8

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      +++.|++|+|||+|+..+.+.
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            788999999999999988764

>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=95.20  E-value=0.02  Score=48.28  Aligned_cols=22  Identities=27%  Similarity=0.391  Sum_probs=19.4

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -++|.|++|+|||+|+..+++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3788999999999999998863

>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=95.17  E-value=0.0082  Score=51.21  Aligned_cols=27  Identities=22%  Similarity=0.411  Sum_probs=21.5

Q ss_pred             cCCCCceeEEECCCCCChHHHHHHHHH
Q 047029          237 GKAWKRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       237 g~~~~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      |....--+++.|+||+|||+|+..+..
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhc
Confidence            333344699999999999999998754

>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=95.14  E-value=0.0057  Score=52.59  Aligned_cols=29  Identities=24%  Similarity=0.343  Sum_probs=24.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      .+|+||.||+|.|||+++.++... |..++
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~-g~~li   43 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR-GHRLV   43 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEE
Confidence            579999999999999999888776 55443

>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=95.13  E-value=0.008  Score=51.82  Aligned_cols=26  Identities=15%  Similarity=0.390  Sum_probs=22.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ++-++|.||+|+||++|++.+.....
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~~   28 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKHP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhCC
Confidence            56799999999999999999998753

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {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: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.13  E-value=0.016  Score=50.42  Aligned_cols=18  Identities=33%  Similarity=0.473  Sum_probs=15.6

Q ss_pred             CceeEEECCCCCChHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLI  258 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla  258 (455)
                      .+.+++.+|+|+|||..+
T Consensus        40 ~~~~il~apTGsGKT~~a   57 (202)
T d2p6ra3          40 GKNLLLAMPTAAGKTLLA   57 (202)
T ss_dssp             CSCEEEECSSHHHHHHHH
T ss_pred             CCCEEEEcCCCCchhHHH
Confidence            457899999999999875

>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=95.13  E-value=0.0043  Score=52.70  Aligned_cols=23  Identities=17%  Similarity=0.281  Sum_probs=20.0

Q ss_pred             ceeEEECCCCCChHHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      --+++.|+||+|||+|+..+.+.
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTTCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35999999999999999998753

>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=95.11  E-value=0.005  Score=53.38  Aligned_cols=30  Identities=30%  Similarity=0.328  Sum_probs=24.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      .+|+||.||+|+|||+++.++... |..++.
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~-G~~lva   44 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK-NHLFVG   44 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT-TCEEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCceec
Confidence            579999999999999999988754 665553

>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=95.10  E-value=0.014  Score=49.49  Aligned_cols=21  Identities=33%  Similarity=0.607  Sum_probs=19.0

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      +++.|+||+|||+|+..+.+.
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998763

>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=95.10  E-value=0.015  Score=48.83  Aligned_cols=20  Identities=35%  Similarity=0.642  Sum_probs=18.4

Q ss_pred             eEEECCCCCChHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~  263 (455)
                      +++.|.+|+|||+|+..+.+
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999998875

>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=95.04  E-value=0.028  Score=52.80  Aligned_cols=37  Identities=14%  Similarity=0.092  Sum_probs=28.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC-----CcEEEEecccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK-----FDIYDMELASL  277 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~-----~~v~~l~~~~~  277 (455)
                      |--+-+.||+|+||||+++.|+..+.     ..+..+...+.
T Consensus        80 P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F  121 (308)
T d1sq5a_          80 PYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             CEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeee
Confidence            44577889999999999999999884     45666665554

>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=95.01  E-value=0.018  Score=48.37  Aligned_cols=21  Identities=29%  Similarity=0.550  Sum_probs=19.1

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      +++.|++|+|||+|+..+.+.
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998763

>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=94.97  E-value=0.0067  Score=52.30  Aligned_cols=29  Identities=24%  Similarity=0.376  Sum_probs=24.2

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDM  272 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l  272 (455)
                      -+-++|++|+||||+|..+ ..+|++++..
T Consensus         5 IIgitG~~gSGKstva~~l-~~~g~~~~~~   33 (191)
T d1uf9a_           5 IIGITGNIGSGKSTVAALL-RSWGYPVLDL   33 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHH-HHTTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCeEEEc
Confidence            4568899999999999998 5688888754

>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=94.92  E-value=0.044  Score=49.77  Aligned_cols=24  Identities=29%  Similarity=0.403  Sum_probs=21.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~  264 (455)
                      +-.++|.|.||+||||++.+|.+.
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCcHHHHHHHHhCC
Confidence            457999999999999999999865

>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=94.86  E-value=0.013  Score=50.77  Aligned_cols=21  Identities=38%  Similarity=0.623  Sum_probs=18.9

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      +++.|++|+|||+|+..+.+.
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            789999999999999998763

>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=94.77  E-value=0.0075  Score=55.50  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=16.4

Q ss_pred             ceeEEECCCCCChHHHH-HHHHH
Q 047029          242 RGYLLYGPPGTGKSSLI-AAMAN  263 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla-~alA~  263 (455)
                      ..+|+.||||||||+++ ..++.
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv~~   37 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKIAH   37 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHHHHHHH
Confidence            45899999999999764 33443

>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=94.75  E-value=0.0079  Score=50.62  Aligned_cols=20  Identities=30%  Similarity=0.454  Sum_probs=18.6

Q ss_pred             eEEECCCCCChHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~  263 (455)
                      ++|.|.+|+|||+|+..+.+
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999876

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {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: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.72  E-value=0.13  Score=44.75  Aligned_cols=57  Identities=14%  Similarity=0.132  Sum_probs=32.9

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhc----CCCCceeEEECCCCCChHHHHHHHHH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVG----KAWKRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g----~~~~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      .+|+++..++++.+.+.+. . | ..|.-.+...    ...++.+++..|+|+|||...-..+.
T Consensus         4 msf~~l~l~~~l~~~l~~~-g-~-~~pt~iQ~~~ip~~l~g~~d~iv~a~TGsGKT~~~~l~~~   64 (208)
T d1hv8a1           4 MNFNELNLSDNILNAIRNK-G-F-EKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI   64 (208)
T ss_dssp             CCGGGSSCCHHHHHHHHHH-T-C-CSCCHHHHHHHHHHHHTCSEEEEECCSSSSHHHHHHHHHH
T ss_pred             cCHHHcCCCHHHHHHHHHC-C-C-CCCCHHHHHHHHHHHcCCCCeeeechhcccccceeecccc
Confidence            3788888887777765431 0 1 0110011111    11145899999999999986654443

>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=94.67  E-value=0.0085  Score=50.39  Aligned_cols=21  Identities=19%  Similarity=0.477  Sum_probs=19.0

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      -++|.|+||+|||||+.++..
T Consensus        15 kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          15 KLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             EEEEEEETTSSHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            399999999999999999865

>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=94.65  E-value=0.0081  Score=52.94  Aligned_cols=30  Identities=33%  Similarity=0.432  Sum_probs=24.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      -+-|+|++|+||||+++.+. .+|+++++.|
T Consensus         5 iIgitG~igSGKStv~~~l~-~~G~~vidaD   34 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA-DLGINVIDAD   34 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH-HTTCEEEEHH
T ss_pred             EEEEECCCcCCHHHHHHHHH-HCCCcEEEch
Confidence            35589999999999999886 7898887654

>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=94.63  E-value=0.0077  Score=52.90  Aligned_cols=29  Identities=24%  Similarity=0.352  Sum_probs=24.6

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +-|+|++||||||+++.+. .+|+++++.|
T Consensus         5 IgITG~igSGKStv~~~l~-~~G~~vidaD   33 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT-DLGVPLVDAD   33 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH-TTTCCEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEEEch
Confidence            4479999999999999886 6899988765

>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=94.61  E-value=0.012  Score=50.50  Aligned_cols=21  Identities=29%  Similarity=0.455  Sum_probs=19.1

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      ++|.|.+|+|||+|+..+.+.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            889999999999999998764

>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=94.59  E-value=0.014  Score=50.59  Aligned_cols=31  Identities=16%  Similarity=0.359  Sum_probs=25.7

Q ss_pred             eEEECCCCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      |.+.|+.|+||||+++.|++.+   |.++..+..
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~~~   36 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLAF   36 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEec
Confidence            5678999999999999999987   667766543

>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=94.59  E-value=0.0046  Score=54.61  Aligned_cols=25  Identities=32%  Similarity=0.622  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+-|.||.|+|||||++.|++.+
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            3458899999999999999999877

>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=94.55  E-value=0.0089  Score=50.81  Aligned_cols=22  Identities=18%  Similarity=0.321  Sum_probs=19.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -+++.|++|+|||+|+..+.+.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999998864

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {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: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.51  E-value=0.21  Score=44.03  Aligned_cols=53  Identities=23%  Similarity=0.324  Sum_probs=32.8

Q ss_pred             CCCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC---CCceeEEECCCCCChHH
Q 047029          201 DHPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKA---WKRGYLLYGPPGTGKSS  256 (455)
Q Consensus       201 ~~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~---~~rg~LL~GPpGTGKTs  256 (455)
                      +...+|+++...+.+.+.|.+. . | ..|..-+...++   ..+.++...|+|||||.
T Consensus        14 ~~~~sF~~l~L~~~l~~~L~~~-g-~-~~pt~IQ~~aIp~il~g~dvi~~a~TGSGKTl   69 (222)
T d2j0sa1          14 DVTPTFDTMGLREDLLRGIYAY-G-F-EKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTA   69 (222)
T ss_dssp             CCCCSGGGGCCCHHHHHHHHHH-T-C-CSCCHHHHHHHHHHHTTCCEEEECCTTSSHHH
T ss_pred             CCCCCHHHCCCCHHHHHHHHHC-C-C-CCCCHHHHHHHHHHHCCCCeEEEcCcchhhhh
Confidence            3445899999888887777542 1 1 111111111111   15789999999999994

>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=94.31  E-value=0.014  Score=49.43  Aligned_cols=20  Identities=30%  Similarity=0.615  Sum_probs=8.4

Q ss_pred             eEEECCCCCChHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~  263 (455)
                      +++.|.||||||+|+.++.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78899999999999998875

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.30  E-value=0.036  Score=48.88  Aligned_cols=51  Identities=18%  Similarity=0.214  Sum_probs=30.9

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC---CCceeEEECCCCCChHHH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKA---WKRGYLLYGPPGTGKSSL  257 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~---~~rg~LL~GPpGTGKTsl  257 (455)
                      .+|+++..++++.+.|.+. .  +..+...++..++   ..+.+++..|+|||||..
T Consensus        10 ~sF~~l~l~~~l~~~L~~~-g--~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKT~a   63 (212)
T d1qdea_          10 YKFDDMELDENLLRGVFGY-G--FEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGT   63 (212)
T ss_dssp             CCGGGGTCCHHHHHHHHHH-T--CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHH
T ss_pred             cChhhCCCCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHcCCCEEeecccccchhhh
Confidence            4799998888877777531 1  0111111111111   246799999999999963

>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=94.30  E-value=0.012  Score=55.84  Aligned_cols=34  Identities=32%  Similarity=0.501  Sum_probs=26.2

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc-----CCcEEEEeccc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL-----KFDIYDMELAS  276 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l-----~~~v~~l~~~~  276 (455)
                      -+=+.||||+|||||+.+++..+     +..++.+|.++
T Consensus        53 ~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss   91 (323)
T d2qm8a1          53 RVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSS   91 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGG
T ss_pred             EEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeeccccc
Confidence            36788999999999999999875     33455666554

>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=94.24  E-value=0.011  Score=56.22  Aligned_cols=34  Identities=26%  Similarity=0.459  Sum_probs=25.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc---C--CcEEEEeccc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL---K--FDIYDMELAS  276 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l---~--~~v~~l~~~~  276 (455)
                      -+=+.||||+|||||+.+++..+   |  ..++.+|.++
T Consensus        56 ~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss   94 (327)
T d2p67a1          56 RLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSS   94 (327)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC-
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCce
Confidence            47788999999999999999876   3  3455566554

>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=94.20  E-value=0.0078  Score=51.96  Aligned_cols=29  Identities=21%  Similarity=0.267  Sum_probs=24.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEE
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYD  271 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~  271 (455)
                      -+.+.|+.|+||||+++.|++.++...+.
T Consensus        11 ~I~ieG~~GsGKTTl~~~L~~~l~~~~~~   39 (197)
T d2vp4a1          11 TVLIEGNIGSGKTTYLNHFEKYKNDICLL   39 (197)
T ss_dssp             EEEEECSTTSCHHHHHHTTGGGTTTEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEE
Confidence            57788999999999999999999765443

>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=94.12  E-value=0.0096  Score=50.21  Aligned_cols=22  Identities=32%  Similarity=0.555  Sum_probs=19.2

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      .|.|.|+||+|||||+.++.+.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999753

>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=94.04  E-value=0.012  Score=51.47  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=20.5

Q ss_pred             eEEECCCCCChHHHHHHHHHHc
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l  265 (455)
                      +.+.|++|+||||+++.|++.|
T Consensus         5 IviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6778999999999999999987

>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=94.02  E-value=0.0094  Score=53.77  Aligned_cols=26  Identities=27%  Similarity=0.445  Sum_probs=22.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+-|.||+|||||||++.++....
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~gl~~   56 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGCLDK   56 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCcchhhHhccCCCC
Confidence            34588999999999999999998774

>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=93.95  E-value=0.0092  Score=50.66  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      .++|.|+||+|||||+.++.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999863

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {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: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.88  E-value=0.051  Score=47.53  Aligned_cols=51  Identities=18%  Similarity=0.195  Sum_probs=30.1

Q ss_pred             CCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC---CCceeEEECCCCCChHH
Q 047029          203 PSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKA---WKRGYLLYGPPGTGKSS  256 (455)
Q Consensus       203 p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~---~~rg~LL~GPpGTGKTs  256 (455)
                      ..+|+++...+++.+.|.+. .  +..|...++..++   ..+.+++..|+|||||.
T Consensus         2 ~~~F~~l~L~~~l~~~l~~~-g--~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTl   55 (206)
T d1veca_           2 GNEFEDYCLKRELLMGIFEM-G--WEKPSPIQEESIPIALSGRDILARAKNGTGKSG   55 (206)
T ss_dssp             CSSGGGSCCCHHHHHHHHTT-T--CCSCCHHHHHHHHHHHTTCCEEEECCSSSTTHH
T ss_pred             CCChhccCcCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHcCCCEEeeccCcccccc
Confidence            45788888887776666442 0  0111111111111   14689999999999994

>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=93.86  E-value=0.012  Score=53.25  Aligned_cols=24  Identities=38%  Similarity=0.656  Sum_probs=20.9

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCC
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      +-|.||.|+|||||++.+++.+..
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~~p   50 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIVKP   50 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEECCCCChHHHHHHHHHcCCCC
Confidence            457899999999999999998843

>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=93.79  E-value=0.016  Score=48.78  Aligned_cols=21  Identities=29%  Similarity=0.600  Sum_probs=19.2

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      ++|.|++|+|||+|+..+.+.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999999864

>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=93.73  E-value=0.012  Score=54.78  Aligned_cols=26  Identities=27%  Similarity=0.368  Sum_probs=22.9

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ...-+-|.||+|+|||||+++|++.+
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            34458899999999999999999987

>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=93.68  E-value=0.017  Score=53.49  Aligned_cols=24  Identities=21%  Similarity=0.444  Sum_probs=17.6

Q ss_pred             ceeEEECCCCCChHHHH-HHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLI-AAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla-~alA~~l  265 (455)
                      ..+|+.||||||||+++ ..+|..+
T Consensus        25 g~~lV~g~aGSGKTt~l~~ri~~ll   49 (318)
T d1pjra1          25 GPLLIMAGAGSGKTRVLTHRIAYLM   49 (318)
T ss_dssp             SCEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEecCCccHHHHHHHHHHHHH
Confidence            35899999999999654 4455544

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {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: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.65  E-value=0.063  Score=46.82  Aligned_cols=31  Identities=23%  Similarity=0.179  Sum_probs=25.2

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      ..++.+|+|+|||.++-+++..++.+++.+-
T Consensus        87 ~~ll~~~tG~GKT~~a~~~~~~~~~~~Liv~  117 (206)
T d2fz4a1          87 RGCIVLPTGSGKTHVAMAAINELSTPTLIVV  117 (206)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEEE
T ss_pred             CcEEEeCCCCCceehHHhHHHHhcCceeEEE
Confidence            3467899999999999999999877765543

>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=93.60  E-value=0.035  Score=50.61  Aligned_cols=37  Identities=22%  Similarity=0.170  Sum_probs=32.0

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      +.||-+++.|.-|+||||++.++|..+   |..+.-+++.
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~D   45 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTD   45 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCC
Confidence            457889999999999999999999988   7888777765

>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=93.59  E-value=0.011  Score=53.59  Aligned_cols=27  Identities=22%  Similarity=0.424  Sum_probs=23.3

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ++..-+-|.||+|+|||||++.+++.+
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            334568899999999999999999877

>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=93.57  E-value=0.025  Score=50.20  Aligned_cols=30  Identities=17%  Similarity=0.124  Sum_probs=25.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      |+=+.+.|+-|+||||+++.|++.++...+
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~~~~i   31 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYPEWHV   31 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCTTSEE
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhhcCC
Confidence            566889999999999999999999965544

>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=93.55  E-value=0.014  Score=49.83  Aligned_cols=20  Identities=25%  Similarity=0.552  Sum_probs=18.5

Q ss_pred             eEEECCCCCChHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~  263 (455)
                      +++.|+||+|||+|+..+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            78999999999999999875

>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=93.47  E-value=0.019  Score=48.26  Aligned_cols=20  Identities=35%  Similarity=0.662  Sum_probs=18.5

Q ss_pred             eEEECCCCCChHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~  263 (455)
                      +++.|+||+|||+|+..+.+
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            78999999999999999875

>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=93.46  E-value=0.015  Score=48.21  Aligned_cols=22  Identities=41%  Similarity=0.628  Sum_probs=19.4

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -++|.|+||+|||||+.++.+.
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999753

>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=93.42  E-value=0.016  Score=51.76  Aligned_cols=27  Identities=19%  Similarity=0.213  Sum_probs=23.6

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEE
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIY  270 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~  270 (455)
                      +-|+|+.||||||+|+.+++.+|+.++
T Consensus         4 IgiTG~igSGKsTva~~l~e~~g~~~i   30 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNYSAVKY   30 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCeEE
Confidence            568999999999999999998886554

>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=93.38  E-value=0.016  Score=52.49  Aligned_cols=25  Identities=28%  Similarity=0.493  Sum_probs=22.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+-|.||+|+|||||+++++..+
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            3458899999999999999999877

>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=93.36  E-value=0.021  Score=48.72  Aligned_cols=20  Identities=35%  Similarity=0.677  Sum_probs=18.7

Q ss_pred             eEEECCCCCChHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~  263 (455)
                      +++.|.||||||||+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999886

>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=93.27  E-value=0.014  Score=52.97  Aligned_cols=27  Identities=30%  Similarity=0.380  Sum_probs=23.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      ..-+-|.||+|||||||++.|+.....
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl~~p   57 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLLERP   57 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCccc
Confidence            345889999999999999999997743

>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=93.22  E-value=0.023  Score=47.32  Aligned_cols=21  Identities=19%  Similarity=0.314  Sum_probs=19.2

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      ++|.|++|+|||+|+..+.+.
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999999863

>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=93.14  E-value=0.021  Score=47.77  Aligned_cols=22  Identities=27%  Similarity=0.274  Sum_probs=19.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -++|.|++|+|||+|+..+.+.
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999998763

>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=93.12  E-value=0.016  Score=49.84  Aligned_cols=21  Identities=38%  Similarity=0.515  Sum_probs=19.3

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      -+.|.|+||+|||||+.++.+
T Consensus        25 ~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHhcC
Confidence            489999999999999999975

>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=93.11  E-value=0.036  Score=48.85  Aligned_cols=30  Identities=20%  Similarity=0.196  Sum_probs=25.7

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCCcEEEEe
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKFDIYDME  273 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~~v~~l~  273 (455)
                      +.+.|+-|+||||+++.+++.|......+.
T Consensus         6 I~iEG~DGsGKST~~~~L~~~L~~~~~~~~   35 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYKKLQPNCKLLK   35 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTTSEEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhCCEEEE
Confidence            677899999999999999999977665554

>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=93.04  E-value=0.025  Score=50.62  Aligned_cols=28  Identities=36%  Similarity=0.419  Sum_probs=23.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCCc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKFD  268 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~~  268 (455)
                      .+...|.|++|+|||||+.++.......
T Consensus        95 ~kt~~~~G~SGVGKSTLiN~L~~~~~~~  122 (225)
T d1u0la2          95 GKISTMAGLSGVGKSSLLNAINPGLKLR  122 (225)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHSTTCCCC
T ss_pred             CCeEEEECCCCCCHHHHHHhhcchhhhh
Confidence            3567899999999999999998765543

>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=92.83  E-value=0.028  Score=47.39  Aligned_cols=22  Identities=36%  Similarity=0.520  Sum_probs=19.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -+++.|+||+|||+|+..+.+.
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3899999999999999988763

>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=92.65  E-value=0.025  Score=47.89  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=20.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -|.|.|.||+|||||+.++.+.
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999864

>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=92.58  E-value=0.042  Score=50.97  Aligned_cols=23  Identities=30%  Similarity=0.560  Sum_probs=21.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -.++.||+|||||+|+..+++..
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHHH
Confidence            48999999999999999999866

>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=92.57  E-value=0.013  Score=53.23  Aligned_cols=25  Identities=24%  Similarity=0.545  Sum_probs=22.2

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+-|.||+|||||||+++++...
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCc
Confidence            3458899999999999999999976

>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=92.46  E-value=0.014  Score=51.64  Aligned_cols=26  Identities=15%  Similarity=0.244  Sum_probs=22.8

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      +=+.+.||-|+||||+++.|++.+..
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~~l~~   28 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQLCED   28 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            34788999999999999999999853

>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=92.45  E-value=0.16  Score=46.56  Aligned_cols=23  Identities=35%  Similarity=0.560  Sum_probs=20.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -++++|++|||||+|+..+++..
T Consensus        70 r~~If~~~g~GKt~l~~~i~~~~   92 (276)
T d2jdid3          70 KIGLFGGAGVGKTVLIMELINNV   92 (276)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHH
Confidence            38999999999999999998774

>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=92.41  E-value=0.025  Score=51.73  Aligned_cols=26  Identities=23%  Similarity=0.358  Sum_probs=22.5

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+-|.||+|+|||||+++|+..+.
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~Gl~~   53 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINFLEK   53 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCcc
Confidence            34588999999999999999998764

>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=92.16  E-value=0.031  Score=46.94  Aligned_cols=22  Identities=27%  Similarity=0.428  Sum_probs=19.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      .|.|.|.||+|||||+.++.+.
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999999753

>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=92.06  E-value=0.037  Score=46.59  Aligned_cols=20  Identities=40%  Similarity=0.609  Sum_probs=18.5

Q ss_pred             eEEECCCCCChHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~  263 (455)
                      ++|.|++|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999875

>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=92.00  E-value=0.04  Score=46.78  Aligned_cols=22  Identities=18%  Similarity=0.360  Sum_probs=19.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -+++.|.+|+|||+|+..+.+.
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999998764

>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=92.00  E-value=0.014  Score=48.37  Aligned_cols=21  Identities=33%  Similarity=0.626  Sum_probs=19.4

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      +.|.|.||+|||||+.++.+.
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999999875

>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=92.00  E-value=0.029  Score=50.69  Aligned_cols=26  Identities=27%  Similarity=0.543  Sum_probs=22.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      ..-+-|.||.|+|||||++++++.+.
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            34577999999999999999999874

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=91.94  E-value=0.1  Score=46.98  Aligned_cols=36  Identities=31%  Similarity=0.384  Sum_probs=30.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEeccc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELAS  276 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~  276 (455)
                      ++-+++.|.-|+||||++..+|..+   |..+..+|+.-
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~Dp   58 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDP   58 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCC
Confidence            5668888999999999988888877   78888887763

>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=91.91  E-value=0.028  Score=50.83  Aligned_cols=27  Identities=26%  Similarity=0.437  Sum_probs=23.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcCC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      ..-+-|.||.|+|||||+++++..+..
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~~p   58 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLVRA   58 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCC
Confidence            345889999999999999999998854

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {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: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=91.90  E-value=0.053  Score=52.36  Aligned_cols=35  Identities=29%  Similarity=0.300  Sum_probs=27.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      .+++++.|++|+|||+++..+...+   |..++.+|..
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~k   87 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPN   87 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEET
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            5689999999999999987766554   6666666653

>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=91.84  E-value=0.02  Score=48.32  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=18.0

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -+++.|++|+|||+|+.++.+.
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3788999999999999987653

>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=91.77  E-value=0.037  Score=46.89  Aligned_cols=22  Identities=36%  Similarity=0.540  Sum_probs=19.6

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -+.+.|.+|+|||||+.+|.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4788999999999999999864

>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=91.76  E-value=0.048  Score=50.56  Aligned_cols=35  Identities=14%  Similarity=0.221  Sum_probs=25.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL  277 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~  277 (455)
                      -+-+.|++|+||||+++++++.+   +.....+...+.
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsf   43 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF   43 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCC
Confidence            57889999999999999999977   556555665554

>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=91.72  E-value=0.04  Score=46.80  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=19.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -++|.|.+|+|||+|+..+.+.
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988873

>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=91.70  E-value=0.029  Score=47.03  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=19.9

Q ss_pred             CceeEEECCCCCChHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      ..-+.|.|+|++|||||+.++.+
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            34599999999999999999854

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

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: putative ATP-dependent RNA helicase VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=91.35  E-value=0.5  Score=41.80  Aligned_cols=23  Identities=26%  Similarity=0.546  Sum_probs=17.4

Q ss_pred             CceeEEECCCCCChHH--HHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSS--LIAAMAN  263 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTs--la~alA~  263 (455)
                      .+.+++..|+|||||.  ++-.+-+
T Consensus        58 g~dvvi~a~TGsGKTlayllp~l~~   82 (238)
T d1wrba1          58 HRDIMACAQTGSGKTAAFLIPIINH   82 (238)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCcceeeHHHHHHH
Confidence            4689999999999997  4444433

>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=91.33  E-value=0.046  Score=46.77  Aligned_cols=21  Identities=19%  Similarity=0.395  Sum_probs=18.7

Q ss_pred             eEEECCCCCChHHHHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~  264 (455)
                      ++|.|++|+|||+|+..+.+.
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988754

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {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: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=91.25  E-value=0.015  Score=49.15  Aligned_cols=23  Identities=39%  Similarity=0.459  Sum_probs=20.5

Q ss_pred             eEEECCCCCChHHHHHHHHHHcC
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .+|+||.|+|||+++.||.-.++
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            47889999999999999998773

>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=91.20  E-value=0.038  Score=46.85  Aligned_cols=21  Identities=33%  Similarity=0.531  Sum_probs=18.4

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      -|-|.|+||+|||||+.++.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            367899999999999999854

>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=91.08  E-value=0.036  Score=50.46  Aligned_cols=25  Identities=44%  Similarity=0.788  Sum_probs=22.2

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHcC
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .-+-|.||.|+|||||+++++..+.
T Consensus        31 ei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          31 DVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHHCCCc
Confidence            3488999999999999999998873

>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=90.97  E-value=0.086  Score=45.28  Aligned_cols=33  Identities=15%  Similarity=0.266  Sum_probs=27.7

Q ss_pred             ceeEEECC-CCCChHHHHHHHHHHc---CCcEEEEec
Q 047029          242 RGYLLYGP-PGTGKSSLIAAMANYL---KFDIYDMEL  274 (455)
Q Consensus       242 rg~LL~GP-pGTGKTsla~alA~~l---~~~v~~l~~  274 (455)
                      +-|++.|- +|+|||+++..||..+   |+.+..++.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~   38 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKP   38 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECS
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECc
Confidence            46889998 5999999999999987   778777764

>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=90.47  E-value=0.047  Score=46.09  Aligned_cols=22  Identities=50%  Similarity=0.582  Sum_probs=19.2

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      .|.|.|.||+|||||+.++.+.
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999653

>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=90.15  E-value=0.048  Score=48.84  Aligned_cols=25  Identities=44%  Similarity=0.587  Sum_probs=21.3

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHc
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      ..-+-|.||.|+|||||.+++++..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHTSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3457888999999999999999854

>d1e69a_ c.37.1.12 (A:) Smc head 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: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.61  E-value=0.07  Score=48.81  Aligned_cols=23  Identities=35%  Similarity=0.582  Sum_probs=20.3

Q ss_pred             eEEECCCCCChHHHHHHHHHHcC
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      -+|+||.|+|||++..|++-.++
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~lg   49 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWVFG   49 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTSC
T ss_pred             EEEECCCCCcHHHHHHHHHHHhC
Confidence            48999999999999999977664

>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=89.23  E-value=0.088  Score=44.70  Aligned_cols=18  Identities=39%  Similarity=0.654  Sum_probs=17.3

Q ss_pred             eEEECCCCCChHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAM  261 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~al  261 (455)
                      ++|-|.+|+|||+|+..+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            789999999999999999

>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=89.21  E-value=0.1  Score=44.05  Aligned_cols=22  Identities=32%  Similarity=0.317  Sum_probs=19.8

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      -+++.|++|+|||+|+..+.+.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999988774

>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=88.71  E-value=0.04  Score=49.47  Aligned_cols=26  Identities=35%  Similarity=0.529  Sum_probs=19.7

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      .+..+|.|++|+|||||+.++.....
T Consensus        97 ~~~~vl~G~SGVGKSSLiN~L~~~~~  122 (231)
T d1t9ha2          97 DKTTVFAGQSGVGKSSLLNAISPELG  122 (231)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC---
T ss_pred             cceEEEECCCCccHHHHHHhhccHhH
Confidence            34567889999999999999976554

>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=88.63  E-value=0.094  Score=49.53  Aligned_cols=25  Identities=32%  Similarity=0.182  Sum_probs=22.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHcCC
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      -|.|-|+-|+||||+++.++++++.
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEEECCccCCHHHHHHHHHHHhcc
Confidence            3678899999999999999999853

>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=88.45  E-value=0.4  Score=42.66  Aligned_cols=38  Identities=18%  Similarity=0.167  Sum_probs=27.3

Q ss_pred             CCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc
Q 047029          240 WKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL  277 (455)
Q Consensus       240 ~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~  277 (455)
                      .+...||+|..|+|||.++-..+...   |..+..+-....
T Consensus        75 ~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt~~  115 (233)
T d2eyqa3          75 LAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTL  115 (233)
T ss_dssp             SCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSSHH
T ss_pred             CccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccHHH
Confidence            35689999999999998776555443   667766655443

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase 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: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=88.43  E-value=0.56  Score=39.95  Aligned_cols=23  Identities=35%  Similarity=0.310  Sum_probs=17.6

Q ss_pred             CceeEEECCCCCChHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      .+.+++.-|+|+|||.......-
T Consensus        40 g~~vlv~apTGsGKT~~~~~~~~   62 (206)
T d1oywa2          40 GRDCLVVMPTGGGKSLCYQIPAL   62 (206)
T ss_dssp             TCCEEEECSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEcCCCCCCcchhhhhhh
Confidence            35799999999999977644433

>d1w1wa_ c.37.1.12 (A:) Smc head 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: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.01  E-value=0.12  Score=48.91  Aligned_cols=24  Identities=33%  Similarity=0.587  Sum_probs=20.8

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCC
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      -+++||.|+|||+++.||+-.||.
T Consensus        28 ~~i~G~NGsGKS~ileAi~~~lg~   51 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAISFVLGV   51 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            479999999999999999876653

>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=87.94  E-value=0.21  Score=44.74  Aligned_cols=33  Identities=24%  Similarity=0.290  Sum_probs=27.3

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      -+-++|.=|+||||++..+|..|   |.++.-+|+.
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D   38 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCD   38 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEEC
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecC
Confidence            46678999999999999998877   7777777764

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase 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: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=87.46  E-value=0.4  Score=43.47  Aligned_cols=39  Identities=23%  Similarity=0.140  Sum_probs=27.4

Q ss_pred             CCCceeEEECCCCCChHHHHHHHHHHc---CCcEEEEecccc
Q 047029          239 AWKRGYLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASL  277 (455)
Q Consensus       239 ~~~rg~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~  277 (455)
                      +.+..-||+|..|+|||-++-..+...   |..+..+-.+.+
T Consensus       102 ~~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~Pt~~  143 (264)
T d1gm5a3         102 EKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTSI  143 (264)
T ss_dssp             SSCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECSCHH
T ss_pred             cCcceeeeeccccccccHHHHHHHHHHHhcccceeEEeehHh
Confidence            335678999999999998776665433   666666554443

>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=87.41  E-value=0.13  Score=45.53  Aligned_cols=23  Identities=35%  Similarity=0.401  Sum_probs=20.4

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -+++.|..|+|||||++.+.+..
T Consensus         5 v~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEEeeCCCCCHHHHHHHHHhcC
Confidence            47999999999999999988764

>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=87.36  E-value=0.13  Score=45.05  Aligned_cols=21  Identities=33%  Similarity=0.520  Sum_probs=18.8

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      -+||-|++|+|||+|++.+..
T Consensus         8 KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            589999999999999998854

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {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: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=87.03  E-value=0.18  Score=42.84  Aligned_cols=22  Identities=27%  Similarity=0.449  Sum_probs=17.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~  263 (455)
                      ++.|+.+|.|+|||.++..++.
T Consensus        24 ~n~lv~~pTGsGKT~i~~~~~~   45 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIAMMIAE   45 (200)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEeCCCCcHHHHHHHHHH
Confidence            4688999999999986665554

>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=86.94  E-value=0.15  Score=42.87  Aligned_cols=23  Identities=35%  Similarity=0.434  Sum_probs=20.1

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -++|-|.+|+|||+|+..+...-
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47999999999999999997654

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

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: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=86.85  E-value=0.85  Score=43.91  Aligned_cols=60  Identities=20%  Similarity=0.261  Sum_probs=43.3

Q ss_pred             CCCCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHHHHHHHcCCcEEEEecc
Q 047029          202 HPSTFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDMELA  275 (455)
Q Consensus       202 ~p~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~alA~~l~~~v~~l~~~  275 (455)
                      -.+.|.--+-+|...++|.+.+..   +           .+..+|.|-+|+|||.+++++++..+.+++.+..+
T Consensus         6 ~~~~~~p~gDQP~aI~~l~~~l~~---g-----------~~~q~l~GltGS~ka~~iA~l~~~~~rp~LVVt~n   65 (413)
T d1t5la1           6 LVAPYEPQGDQPQAIAKLVDGLRR---G-----------VKHQTLLGATGTGKTFTISNVIAQVNKPTLVIAHN   65 (413)
T ss_dssp             CCCSSCCCTTHHHHHHHHHHHHHH---T-----------CSEEEEEECTTSCHHHHHHHHHHHHTCCEEEECSS
T ss_pred             EecCCCCCCCCHHHHHHHHHHHhc---C-----------CCcEEEeCCCCcHHHHHHHHHHHHhCCCEEEEeCC
Confidence            334555544455556666666541   1           34689999999999999999999999998777544

>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=86.71  E-value=0.27  Score=41.02  Aligned_cols=21  Identities=33%  Similarity=0.521  Sum_probs=18.5

Q ss_pred             eeEEECCCCCChHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~  263 (455)
                      -++|.|..|+|||+|++.+..
T Consensus         4 KivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            378999999999999998754

>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=86.49  E-value=0.15  Score=48.06  Aligned_cols=24  Identities=21%  Similarity=0.322  Sum_probs=21.7

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCC
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      |.+-|+-|+||||+++.+++.++.
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            678899999999999999999854

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=86.47  E-value=1.2  Score=36.11  Aligned_cols=61  Identities=15%  Similarity=0.254  Sum_probs=37.5

Q ss_pred             eEEECCCCCChHH-HHHHHHHH--cCCcEEEEecccc--------------------CChHHHHHHHHhh---CCceEEE
Q 047029          244 YLLYGPPGTGKSS-LIAAMANY--LKFDIYDMELASL--------------------RSNSDLRRLLVST---GNRSILV  297 (455)
Q Consensus       244 ~LL~GPpGTGKTs-la~alA~~--l~~~v~~l~~~~~--------------------~~~~~l~~ll~~~---~~~~IL~  297 (455)
                      -+++||-.+|||+ |++.+-++  .|.+++.+....-                    ....++...+...   ....+|+
T Consensus         5 ~~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ikp~~D~R~~~~i~s~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvI~   84 (139)
T d2b8ta1           5 EFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKVIG   84 (139)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCEEE
T ss_pred             EEEEccccCHHHHHHHHHHHHHHHCCCcEEEEEEcccccccceEEcccCceeeeEEeccchhhHHHHHhhccccCcCEEE
Confidence            3789999999998 66666433  3666665543210                    1123333333322   2467999


Q ss_pred             Eecccch
Q 047029          298 IEDIDCS  304 (455)
Q Consensus       298 iDEiD~l  304 (455)
                      |||+..+
T Consensus        85 IDE~QFf   91 (139)
T d2b8ta1          85 IDEVQFF   91 (139)
T ss_dssp             ECSGGGS
T ss_pred             echhhhc
Confidence            9999875

>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=85.15  E-value=0.41  Score=45.98  Aligned_cols=23  Identities=30%  Similarity=0.457  Sum_probs=20.8

Q ss_pred             CceeEEECCCCCChHHHHHHHHH
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMAN  263 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~  263 (455)
                      +-.+.+.|.||+|||||+.++.+
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            45799999999999999999975

>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=84.08  E-value=0.36  Score=44.10  Aligned_cols=23  Identities=22%  Similarity=0.222  Sum_probs=18.5

Q ss_pred             eeEEECCCCCChHHHHHHHHHHc
Q 047029          243 GYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~l  265 (455)
                      -+++.|++|+|||+++..++...
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTC
T ss_pred             eEeeccCCCCChHHHHHHHHhhh
Confidence            37889999999999997655443

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=83.91  E-value=0.17  Score=47.22  Aligned_cols=19  Identities=32%  Similarity=0.529  Sum_probs=16.2

Q ss_pred             eeEEECCCCCChHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAM  261 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~al  261 (455)
                      .-||+|.+|||||||...-
T Consensus        16 valffGLSGTGKTTLs~~~   34 (318)
T d1j3ba1          16 VAVFFGLSGTGKTTLSTDP   34 (318)
T ss_dssp             EEEEEECTTSCHHHHTCBT
T ss_pred             EEEEEccCCCCccccccCC
Confidence            4799999999999987643

>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=83.35  E-value=0.47  Score=42.90  Aligned_cols=32  Identities=22%  Similarity=0.304  Sum_probs=25.2

Q ss_pred             eEEECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      +-++|-=|+||||++.-+|..|   |..+.-+|+.
T Consensus         5 IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~D   39 (289)
T d2afhe1           5 CAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCD   39 (289)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecC
Confidence            4569999999999877777655   8888777764

>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=82.61  E-value=0.61  Score=40.12  Aligned_cols=30  Identities=27%  Similarity=0.380  Sum_probs=24.6

Q ss_pred             EECCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          246 LYGPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       246 L~GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      ..|-.|+||||++..+|..+   |.++..+|+.
T Consensus         7 ~s~KGGvGKTtia~nlA~~la~~g~~VlliD~D   39 (232)
T d1hyqa_           7 ASGKGGTGKTTITANLGVALAQLGHDVTIVDAD   39 (232)
T ss_dssp             EESSSCSCHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             ECCCCCChHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            34889999999999999887   7777777764

>d1bg2a_ c.37.1.9 (A:) Kinesin {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: Motor proteins
domain: Kinesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.58  E-value=0.37  Score=44.77  Aligned_cols=51  Identities=16%  Similarity=0.382  Sum_probs=29.8

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHHH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLIA  259 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla~  259 (455)
                      .+||.+.+.+...+++-+.+..++-.. .+.  |  ....++-||+.|+|||+.+-
T Consensus        44 f~FD~vf~~~~~q~~vf~~~~~~lv~~-~l~--G--~n~~i~aYGqtgSGKTyT~~   94 (323)
T d1bg2a_          44 YAFDRVFQSSTSQEQVYNDCAKKIVKD-VLE--G--YNGTIFAYGQTSSGKTHTME   94 (323)
T ss_dssp             EECSEEECTTCCHHHHHHHHTHHHHHH-HHT--T--CCEEEEEECSTTSSHHHHHT
T ss_pred             eECCEEECCCCCHHHHHHHHHHHHHHH-HHc--C--CCcceeeecccCCCCceecc
Confidence            457777665554555544433222111 111  2  24579999999999998873

>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=82.18  E-value=0.3  Score=40.97  Aligned_cols=22  Identities=18%  Similarity=0.379  Sum_probs=19.7

Q ss_pred             eeEEECCCCCChHHHHHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAAMANY  264 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~alA~~  264 (455)
                      ++-+.|.|++|||||+.++.+.
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEEeCCCCcHHHHHHHHHHh
Confidence            5889999999999999999753

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {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: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.03  E-value=0.2  Score=43.49  Aligned_cols=50  Identities=20%  Similarity=0.250  Sum_probs=30.1

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCC---CCceeEEECCCCCChHH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKA---WKRGYLLYGPPGTGKSS  256 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~---~~rg~LL~GPpGTGKTs  256 (455)
                      ++|+++..++++.+.|.+. .  +..|.-.+...++   ..+.+++..|+|||||.
T Consensus         1 s~F~dl~L~~~l~~~l~~~-g--~~~pt~iQ~~aip~il~g~dvl~~A~TGsGKTl   53 (207)
T d1t6na_           1 SGFRDFLLKPELLRAIVDC-G--FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTA   53 (207)
T ss_dssp             CCSTTSCCCHHHHHHHHHT-T--CCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHH
T ss_pred             CCccccCcCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHcCCCeEEEecccccccc
Confidence            3688898888877766542 1  1111111111111   14789999999999984

>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=82.02  E-value=0.26  Score=46.28  Aligned_cols=24  Identities=21%  Similarity=0.315  Sum_probs=18.7

Q ss_pred             eEEECCCCCChHHHHHHHHHHcCC
Q 047029          244 YLLYGPPGTGKSSLIAAMANYLKF  267 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l~~  267 (455)
                      |.|-|+-|+||||+++.+++.++.
T Consensus         7 I~IEG~iGsGKTTl~~~La~~l~~   30 (329)
T d1e2ka_           7 VYIDGPHGMGKTTTTQLLVALGSR   30 (329)
T ss_dssp             EEECSCTTSSHHHHHHHHTC----
T ss_pred             EEEECCcCCCHHHHHHHHHHHhCC
Confidence            667899999999999999998854

>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=81.97  E-value=0.38  Score=43.65  Aligned_cols=24  Identities=33%  Similarity=0.466  Sum_probs=21.5

Q ss_pred             ceeEEECCCCCChHHHHHHHHHHc
Q 047029          242 RGYLLYGPPGTGKSSLIAAMANYL  265 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~alA~~l  265 (455)
                      |++-+.|+.|+|||||+.+|....
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~   26 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKT   26 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHc
Confidence            688999999999999999997655

>d1ry6a_ c.37.1.9 (A:) Kinesin {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Malaria parasite (Plasmodium falciparum) [TaxId: 5833]

Probab=81.97  E-value=0.41  Score=44.63  Aligned_cols=18  Identities=28%  Similarity=0.562  Sum_probs=15.5

Q ss_pred             ceeEEECCCCCChHHHHH
Q 047029          242 RGYLLYGPPGTGKSSLIA  259 (455)
Q Consensus       242 rg~LL~GPpGTGKTsla~  259 (455)
                      ..++-||..|+|||+.+.
T Consensus        86 ~~i~aYGqTGSGKTyTm~  103 (330)
T d1ry6a_          86 CSCFAYGQTGSGKTYTML  103 (330)
T ss_dssp             EEEEEECCTTSSHHHHHH
T ss_pred             eEEEeeeccccccceeee
Confidence            468999999999998864

>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=81.63  E-value=0.4  Score=43.76  Aligned_cols=26  Identities=15%  Similarity=0.151  Sum_probs=23.1

Q ss_pred             CceeEEECCCCCChHHHHHHHHHHcC
Q 047029          241 KRGYLLYGPPGTGKSSLIAAMANYLK  266 (455)
Q Consensus       241 ~rg~LL~GPpGTGKTsla~alA~~l~  266 (455)
                      -|++-+.|..|+|||||+.+|....|
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~~g   31 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYYTG   31 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcC
Confidence            47999999999999999999987654

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=81.52  E-value=0.26  Score=45.83  Aligned_cols=18  Identities=33%  Similarity=0.602  Sum_probs=15.5

Q ss_pred             eeEEECCCCCChHHHHHH
Q 047029          243 GYLLYGPPGTGKSSLIAA  260 (455)
Q Consensus       243 g~LL~GPpGTGKTsla~a  260 (455)
                      --||+|.+|||||||...
T Consensus        16 ~alfFGLSGTGKTTLs~d   33 (313)
T d2olra1          16 VAVFFGLSGTGKTTLSTD   33 (313)
T ss_dssp             EEEEECSTTSSHHHHHCC
T ss_pred             EEEEEccCCCCcccceeC
Confidence            468999999999998753

>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=80.82  E-value=0.84  Score=39.18  Aligned_cols=33  Identities=21%  Similarity=0.265  Sum_probs=26.4

Q ss_pred             eeEEE-CCCCCChHHHHHHHHHHc---CCcEEEEecc
Q 047029          243 GYLLY-GPPGTGKSSLIAAMANYL---KFDIYDMELA  275 (455)
Q Consensus       243 g~LL~-GPpGTGKTsla~alA~~l---~~~v~~l~~~  275 (455)
                      -+-++ +-.|+|||+++..+|..+   |.++..+|+.
T Consensus         4 vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD~D   40 (237)
T d1g3qa_           4 IISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGD   40 (237)
T ss_dssp             EEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            45556 678999999999999877   7788777764

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {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: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=80.36  E-value=4.4  Score=33.23  Aligned_cols=107  Identities=9%  Similarity=0.143  Sum_probs=61.6

Q ss_pred             eEEECCCCCChHHHHHHHHHHc---CCcEEEEeccccC--------------------------C-h-----HHHHHHHH
Q 047029          244 YLLYGPPGTGKSSLIAAMANYL---KFDIYDMELASLR--------------------------S-N-----SDLRRLLV  288 (455)
Q Consensus       244 ~LL~GPpGTGKTsla~alA~~l---~~~v~~l~~~~~~--------------------------~-~-----~~l~~ll~  288 (455)
                      +.+|=.+|=||||.|-.+|=..   |..++.+..-.-.                          . +     ...+..+.
T Consensus         5 i~vytG~GKGKTTAAlG~alRA~G~G~rV~ivQFlKg~~~~ge~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~   84 (157)
T d1g5ta_           5 IIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMAVWQ   84 (157)
T ss_dssp             EEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHhcCCCEEEEEEEecCCcccchhhhhcccCcEEEEecCCCcccCCChHHHHHHHHHHHH
Confidence            4556557999999988887554   5666555432110                          0 0     11122221


Q ss_pred             h------hCCceEEEEecccchhhhhhhcCCCCCCCCcchhhHhhhhhhhhcccccCCCceEEEEEcCCCCCCCccccCC
Q 047029          289 S------TGNRSILVIEDIDCSIELENRQCGGGYDENNSQVTLSGLLNFVDGLWSSCGDERIIVFTTNYKERLDPALLRP  362 (455)
Q Consensus       289 ~------~~~~~IL~iDEiD~l~~~~~~~~~~~~~~~~~~~~ls~LL~~ldg~~~~~~~~~ivI~TTN~~~~Ld~allRp  362 (455)
                      .      .....+|++|||-....             ..-.....+++.++..    +++.=+|+|-+++   ++.|+. 
T Consensus        85 ~a~~~~~~~~~dllILDEi~~Ai~-------------~gli~~~~v~~ll~~r----p~~~evVlTGr~~---p~~L~e-  143 (157)
T d1g5ta_          85 HGKRMLADPLLDMVVLDELTYMVA-------------YDYLPLEEVISALNAR----PGHQTVIITGRGC---HRDILD-  143 (157)
T ss_dssp             HHHHHTTCTTCSEEEEETHHHHHH-------------TTSSCHHHHHHHHHTS----CTTCEEEEECSSC---CHHHHH-
T ss_pred             HHHHHhhcCccCEEeHHHHHHHHH-------------cCCCCHHHHHHHHHhC----CCCCEEEEECCCC---CHHHHH-
Confidence            1      12357999999987654             1123345566666543    4567788887763   566666 


Q ss_pred             CceeEEEEeC
Q 047029          363 GRMDMHIHMS  372 (455)
Q Consensus       363 GR~d~~I~~~  372 (455)
                       +-|.+-+|.
T Consensus       144 -~ADlVTEm~  152 (157)
T d1g5ta_         144 -LADTVSELR  152 (157)
T ss_dssp             -HCSEEEECC
T ss_pred             -hcceeeeee
Confidence             666665553

>d1goja_ c.37.1.9 (A:) Kinesin {Neurospora crassa [TaxId: 5141]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Neurospora crassa [TaxId: 5141]

Probab=80.24  E-value=0.47  Score=44.69  Aligned_cols=50  Identities=22%  Similarity=0.287  Sum_probs=28.9

Q ss_pred             CCCcccccCHHHHHHHHHHHHHHHHhHHHHhhhcCCCCceeEEECCCCCChHHHH
Q 047029          204 STFDTLAMDPVLKQALIDDLDRFVKRREFYSRVGKAWKRGYLLYGPPGTGKSSLI  258 (455)
Q Consensus       204 ~tfd~l~g~~~~k~~l~~~l~~~l~~~~~~~~~g~~~~rg~LL~GPpGTGKTsla  258 (455)
                      .+||.+.+.+...++|-+.+..++-.. .+.  |  +.-.++-||+.|+|||+.+
T Consensus        48 f~FD~vf~~~~~q~~vy~~~~~plv~~-~l~--G--~n~ti~aYG~tgSGKT~Tm   97 (354)
T d1goja_          48 FTFDRVFDMSCKQSDIFDFSIKPTVDD-ILN--G--YNGTVFAYGQTGAGKSYTM   97 (354)
T ss_dssp             EECSEEECTTCCHHHHHHHHTHHHHHH-HTT--T--CCEEEEEECSTTSSHHHHH
T ss_pred             EECCeEcCCCCCHHHHHHHHHHHHHHH-hhc--c--CceeEEecccCCCCcceee
Confidence            357777665554555544433222211 111  1  2346999999999999775