Psyllid ID: psy12150

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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
MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccEEEEccccccHHHHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHHHHccccccccccccccEEEEEEccccccHHHHHHHHHHHHHcccccEEEEEccccccccHHcccccccEEEccccHHHHHHHHHHHHHHccccccHHHHHHHHHHccccHHHHHHHHHHHHHHHcccccccccHHHHcccccHHHHHHHHHcccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHcccccccccEEEEcccccHHHHHHHHHcccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccHHHccccccccccccccccccccccccccccccEEEcccccHHHHHcHHHHHHHHHHHHHccccccEEEEccccccHHHHHHHHHHHHHcHHHHHHHHHHccccHccHHHHHHHHHHHHHccccccccccccccccEEEEEccHHHHcHHHHHHHHHHHHHHHcccEEEEEEcHHHHcccHHHHcccEEEcccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHcccccccHHHHHHHHccccHHHHHHHHHHccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHHHHHHHccccHHHHHHHHHcccHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
meaflrtgklgkdapsssktsvstsgktrnkpvpwvekyrpktiddVIEQQEVVSVLKKClsgadlphflfygppgtgktstMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTAsgfnqdgkpcppfkivILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYvsciiqpltsrcskfrfkplaeNTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCarlkggegivnedvlevtgvipkpwiekllkvDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCarlkggegivnedvlevtgvipnpwiekllkvDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
Flexible Loop (DISEMBL)
meaflrtgklgkdapsssktsvstsgktrnkpvpwvekyrpktiddviEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTasgfnqdgkpcpPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVetsggdmrRAITCLQSCArlkggegivnedvlevtgvipkpwieklLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETlvetsggdmrRAITCLQSCArlkggegivnedvlevtgvipnpwiekLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
Low Complexity Region (SEG)
MEAFLRTGKLGKDAPsssktsvstsgktRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
Disordered region (IsUnstruct)
*********************************PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA********************STRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK******
Disordered Region (DISOPRED)
**********************************WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQ*************PPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKT**
Disordered Region (DISEMBL)
*******************************PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
Disordered Region (DISPRO)
******************************KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTA*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANKTAV
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	456	2.2.26 [Sep-21-2011]
P35249	363	Replication factor C subu	yes	N/A	0.697	0.876	0.570	1e-102
Q99J62	364	Replication factor C subu	yes	N/A	0.695	0.870	0.563	1e-100
Q09843	340	Replication factor C subu	yes	N/A	0.651	0.873	0.501	6e-80
P40348	353	Replication factor C subu	yes	N/A	0.592	0.764	0.526	7e-79
Q54MD4	347	Probable replication fact	yes	N/A	0.611	0.804	0.474	1e-74
P0C7N7	411	Replication factor C subu	N/A	N/A	0.688	0.763	0.401	6e-71
Q975D3	327	Replication factor C smal	yes	N/A	0.570	0.795	0.459	1e-62
O74111	338	Replication factor C subu	N/A	N/A	0.510	0.689	0.493	3e-62
Q54ST4	347	Probable replication fact	no	N/A	0.5	0.657	0.495	2e-61
A3DNV9	329	Replication factor C smal	yes	N/A	0.447	0.620	0.540	2e-61

>sp|P35249|RFC4_HUMAN Replication factor C subunit 4 OS=Homo sapiens GN=RFC4 PE=1 SV=2

 Score =  370 bits (951), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 187/328 (57%), Positives = 241/328 (73%), Gaps = 10/328 (3%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGKT-----RNKPVPWVEKYRPKTIDDVIEQQEVVS 55
           M+AFL+   +    P +    V+ S  +     + KPVPWVEKYRPK +D+V  Q+EVV+
Sbjct: 1   MQAFLKGTSISTKPPLTKDRGVAASAGSSGENKKAKPVPWVEKYRPKCVDEVAFQEEVVA 60

Query: 56  VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIR 114
           VLKK L GADLP+ LFYGPPGTGKTST++AA  +LFG +++R R+LELNASD+RGIQV+R
Sbjct: 61  VLKKSLEGADLPNLLFYGPPGTGKTSTILAAARELFGPELFRLRVLELNASDERGIQVVR 120

Query: 115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLIC 174
           +KVK FAQ T SG   DGKPCPPFKIVILDEADSMT AAQAALRRTMEKE+K+TRFCLIC
Sbjct: 121 EKVKNFAQLTVSGSRSDGKPCPPFKIVILDEADSMTSAAQAALRRTMEKESKTTRFCLIC 180

Query: 175 NYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRR 234
           NYVS II+PLTSRCSKFRFKPL++     RL  I ++E+V    + +  LV+ S GD+R+
Sbjct: 181 NYVSRIIEPLTSRCSKFRFKPLSDKIQQQRLLDIAKKENVKISDEGIAYLVKVSEGDLRK 240

Query: 235 AITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLL---KVDSFQVLEKYIEDLILEA 291
           AIT LQS  RL GG+ I  + + ++ GVIP   I+ +    +  SF  LE  ++DLI E 
Sbjct: 241 AITFLQSATRLTGGKEITEKVITDIAGVIPAEKIDGVFAACQSGSFDKLEAVVKDLIDEG 300

Query: 292 YSATQLFDQFHDIVMLASSLSDKQKALF 319
           ++ATQL +Q HD+V+  ++LSDKQK++ 
Sbjct: 301 HAATQLVNQLHDVVV-ENNLSDKQKSII 327

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. This subunit may be involved in the elongation of the multiprimed DNA template.
Homo sapiens (taxid: 9606)

>sp|Q99J62|RFC4_MOUSE Replication factor C subunit 4 OS=Mus musculus GN=Rfc4 PE=1 SV=1

 Score =  365 bits (938), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 186/330 (56%), Positives = 240/330 (72%), Gaps = 13/330 (3%)

Query: 1   MEAFLR------TGKLGKDAPSSSKTSVSTSGKTRN-KPVPWVEKYRPKTIDDVIEQQEV 53
           M+AFL+        +L KD    +  +  +SG+T+  KPVPWVEKYRPK +D+V  Q EV
Sbjct: 1   MQAFLKGTSVSAKAQLTKD--RGTPATAGSSGETKKVKPVPWVEKYRPKCVDEVAFQDEV 58

Query: 54  VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQV 112
           V+VL+K L GADLP+ LFYGPPGTGKTST++AA  +LFG +++R R+LELNASD+RGIQV
Sbjct: 59  VAVLRKSLEGADLPNLLFYGPPGTGKTSTILAAARELFGPELFRLRVLELNASDERGIQV 118

Query: 113 IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL 172
           +R+KVK FAQ T SG   DGKPCPPFKIVILDEADSMT AAQAALRRTMEKE+K+TRFCL
Sbjct: 119 VREKVKNFAQLTVSGSRSDGKPCPPFKIVILDEADSMTSAAQAALRRTMEKESKTTRFCL 178

Query: 173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDM 232
           ICNYVS II+PLTSRCSKFRFKPL++     RL  I E+E+V    + +  LV+ S GD+
Sbjct: 179 ICNYVSRIIEPLTSRCSKFRFKPLSDKIQQERLLDIAEKENVKIGNEEIAYLVKISEGDL 238

Query: 233 RRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLIL 289
           R+AIT LQS  RL GG+ +  + + ++ GVIP   I+ +       SF  LE  +++LI 
Sbjct: 239 RKAITFLQSATRLTGGKEVSEDVITDIAGVIPAATIDGIFTACHSGSFDKLEAVVKNLID 298

Query: 290 EAYSATQLFDQFHDIVMLASSLSDKQKALF 319
           E ++ATQL +Q HD ++   +LSDK K++ 
Sbjct: 299 EGHAATQLVNQLHDAIIENENLSDKHKSII 328

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. This subunit may be involved in the elongation of the multiprimed DNA template.

Mus musculus (taxid: 10090)

>sp|Q09843|RFC2_SCHPO Replication factor C subunit 2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rfc2 PE=1 SV=1

 Score =  298 bits (763), Expect = 6e-80,   Method: Compositional matrix adjust.
 Identities = 154/307 (50%), Positives = 196/307 (63%), Gaps = 10/307 (3%)

Query: 14  APSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYG 73
           AP + KT      +   K +PWVE YRPKT+D V  Q+  V VLKK L   +LPH LFYG
Sbjct: 5   APRNKKTE-----QEAKKSIPWVELYRPKTLDQVSSQESTVQVLKKTLLSNNLPHMLFYG 59

Query: 74  PPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG 132
            PGTGKTST++A   +LFG  + + R+LELNASD+RGI +IR+KVK+FA+ T +    DG
Sbjct: 60  SPGTGKTSTILALSRELFGPQLMKSRVLELNASDERGISIIREKVKSFAKTTVTN-KVDG 118

Query: 133 KPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR 192
            PCPPFKI+ILDEADSMT  AQAALRRTME   + TRFCLICNY++ II PL+SRCSK+R
Sbjct: 119 YPCPPFKIIILDEADSMTQDAQAALRRTMESYARITRFCLICNYMTRIIDPLSSRCSKYR 178

Query: 193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV 252
           FKPL    M+ RL++I   ++V  +   +  LVE SGGDMR+AIT LQS A L  G  I 
Sbjct: 179 FKPLDNENMVKRLEFIAADQAVSMEPGVVNALVECSGGDMRKAITFLQSAANLHQGTPIT 238

Query: 253 NEDVLEVTGVIPKPWIEKLLK---VDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLAS 309
              V E+ G +P   I  LL      +   +E    D+  E YS   +  Q HD+++   
Sbjct: 239 ISSVEELAGAVPYNIIRSLLDTAYTKNVSNIETLSRDVAAEGYSTGIILSQLHDVLLKEE 298

Query: 310 SLSDKQK 316
           +LS   K
Sbjct: 299 TLSSPVK 305

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins PCNA and activator 1. Subunit 2 binds ATP and single-stranded DNA.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|P40348|RFC2_YEAST Replication factor C subunit 2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RFC2 PE=1 SV=1

 Score =  295 bits (754), Expect = 7e-79,   Method: Compositional matrix adjust.
 Identities = 148/281 (52%), Positives = 194/281 (69%), Gaps = 11/281 (3%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG- 92
           PWVEKYRPK +D+V  Q   V+VLKK L  A+LPH LFYGPPGTGKTST++A   +L+G 
Sbjct: 26  PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGP 85

Query: 93  DMYRERILELNASDDRGIQVIRDKVKTFAQQTASG---FNQDGKPCPPFKIVILDEADSM 149
           D+ + RILELNASD+RGI ++R+KVK FA+ T S     + +  PCPP+KI+ILDEADSM
Sbjct: 86  DLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSM 145

Query: 150 THAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYIC 209
           T  AQ+ALRRTME  +  TRFCLICNYV+ II PL SRCSKFRFK L  +  + RL++I 
Sbjct: 146 TADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASRCSKFRFKALDASNAIDRLRFIS 205

Query: 210 EQESVMCDFKALETLVETSGGDMRRAITCLQSCAR----LKGGEGIVNEDVLEVTGVIPK 265
           EQE+V CD   LE +++ S GD+RR IT LQS ++    L  G+ I +  V E+ GV+P 
Sbjct: 206 EQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGVVPH 265

Query: 266 P-WIEKLLKVDS--FQVLEKYIEDLILEAYSATQLFDQFHD 303
              IE + KV S  F  ++KY+   +   +SA  + +Q H+
Sbjct: 266 DILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHE 306

Component of ATP-dependent clamp loader (RFC and RFC-like) complexes for DNA clamps, such as the POL30/PCNA homotrimer and the checkpoint clamp DDC1:MEC3:RAD17 complex. During a clamp loading circle, the RFC:clamp complex binds to DNA and the recognition of the double-stranded/single-stranded junction stimulates ATP hydrolysis by RFC. The complex presumably provides bipartite ATP sites in which one subunit supplies a catalytic site for hydrolysis of ATP bound to the neighboring subunit. Dissociation of RFC from the clamp leaves the clamp encircling DNA. Component of the replication factor C (RFC or activator 1) complex which loads POL30/PCNA and acts during elongation of primed DNA templates by DNA polymerase delta and epsilon. RFC has an essential but redundant activity in sister chromatid cohesion establishment. Component of the RFC-like complex CTF18-RFC which is required for efficient establishment of chromosome cohesion during S-phase and may load or unload POL30/PCNA. Component of the RFC-like RAD24-RFC complex which loads the checkpoint clamp DDC1:MEC3:RAD17 complex and is involved in DNA repair pathways. Component of the RFC-like ELG1-RFC complex which appears to have a role in DNA replication, replication fork re-start, recombination and repair. RFC2 binds ATP and single-stranded DNA.

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

>sp|Q54MD4|RFC4_DICDI Probable replication factor C subunit 4 OS=Dictyostelium discoideum GN=rfc4 PE=3 SV=1

 Score =  280 bits (717), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 139/293 (47%), Positives = 197/293 (67%), Gaps = 14/293 (4%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG- 92
           PWV KYRPKT+DDV  Q++V+S LKK L+  +LPH LFYGPPGTGKTST++A    ++G 
Sbjct: 11  PWVAKYRPKTVDDVSYQEDVISALKKSLNTGNLPHLLFYGPPGTGKTSTILAIAMDIYGP 70

Query: 93  DMYRERILELNASDDRGIQVIRDKVKTFA----QQTASGFNQDGKPCPPFKIVILDEADS 148
           ++ ++R+LELNASD+RGI+V+R K+K FA     +T +G      P   FK++ILDEADS
Sbjct: 71  ELMKQRVLELNASDERGIEVVRTKIKNFAGYAVNKTTTG---TSNPGATFKLIILDEADS 127

Query: 149 MTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYI 208
           MT  AQAALRRT+E  +K+TRFCL+CNY+S II PL SRC+KFRFKPL     + RL++I
Sbjct: 128 MTTDAQAALRRTIETTSKTTRFCLLCNYISRIIDPLASRCAKFRFKPLDTVATIERLKFI 187

Query: 209 CEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVL-EVTGVIPKPW 267
            +QE + C+    + +   S GDMR+AIT LQS  R    +  ++EDV+  + G +P   
Sbjct: 188 SQQEGIKCEESVYQAIQVVSNGDMRKAITYLQSAFRFFANK--ISEDVIYNIAGSLPPQL 245

Query: 268 IEKLL---KVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKA 317
           I++L+   K +SF  L+  ++ +I + Y  +Q+  Q  D V+    L+  QK+
Sbjct: 246 IKQLVDCCKKNSFDRLQSMVQSIIAQGYPVSQVISQLFDYVLTTKDLNQSQKS 298

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins PCNA and activator 1. This subunit may be involved in the elongation of the multiprimed DNA template.

Dictyostelium discoideum (taxid: 44689)

>sp|P0C7N7|RFC2_PHANO Replication factor C subunit 2 OS=Phaeosphaeria nodorum (strain SN15 / ATCC MYA-4574 / FGSC 10173) GN=RFC2 PE=3 SV=1

 Score =  268 bits (685), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 150/374 (40%), Positives = 204/374 (54%), Gaps = 60/374 (16%)

Query: 24  TSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTM 83
           TS +  N+  PWVEKYRPKT+ +V  Q   + +L + L  ++LPH LFYGPPGTGKTST+
Sbjct: 24  TSKQESNRLQPWVEKYRPKTLSEVTAQDNTIQILSRTLQSSNLPHMLFYGPPGTGKTSTI 83

Query: 84  IAACHQLFG-DMYRERILELNASDDRGIQVIRDKVKTFAQQ---TASGFN---------- 129
           +A   QL+G ++ + R+LELNASD+RGI ++R KVK FA+Q    A  +N          
Sbjct: 84  LALAKQLYGPELMKSRVLELNASDERGISIVRQKVKDFARQQLSVAPTYNVMTEDKDGGE 143

Query: 130 ------QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQP 183
                 +D   CPPFKI++LDEADSMT  AQ+ALRRTME  ++ TRFCL+CNYV+ II P
Sbjct: 144 AKMVRYRDKYSCPPFKIIVLDEADSMTQDAQSALRRTMETYSRMTRFCLVCNYVTRIIDP 203

Query: 184 LTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCA 243
           L SRCSKFRFK L +   + R+  I + E V  D    E LV  + GD+R+AIT LQS A
Sbjct: 204 LASRCSKFRFKSLDQGNAVRRVDDIAKLEDVKLDAGVSEELVRVADGDLRKAITFLQSAA 263

Query: 244 RLKGG----------------------------EGIVNEDVLEVTGVIPKPWIEKL---- 271
           RL G                               I  E + E+ GVIP P +       
Sbjct: 264 RLVGATQTAGRKKKVVVDDEDEMDIDPPSAPSKTTISLEQIAEIAGVIPAPTLASFSDAL 323

Query: 272 -----LKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLV 326
                 K   +  + K +E++I E +SA+Q   Q ++ VM    + D +K     + +  
Sbjct: 324 FPKSAAKSIRYNEIAKVVENMIAEGWSASQTVSQLYEQVMFDERVEDIKKVRLAGVFSET 383

Query: 327 E---TSGGDMRRAI 337
           +     GGD   A+
Sbjct: 384 DKRLVDGGDEHLAV 397

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. Subunit 2 binds ATP and single-stranded DNA.

Phaeosphaeria nodorum (strain SN15 / ATCC MYA-4574 / FGSC 10173) (taxid: 321614)

>sp|Q975D3|RFCS_SULTO Replication factor C small subunit OS=Sulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) GN=rfcS PE=3 SV=1

 Score =  240 bits (613), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 126/274 (45%), Positives = 175/274 (63%), Gaps = 14/274 (5%)

Query: 33  VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG 92
           + W EKYRP+++DD++ Q+++V  LK+ +   ++PH LF GPPGTGKT+  +A  H L+G
Sbjct: 7   ILWAEKYRPRSLDDIVNQKDIVERLKRFVKDKNMPHLLFSGPPGTGKTTAALALVHDLYG 66

Query: 93  DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA 152
           D YR+  LELNASD+RGI VIR+KVK FA+  A G         PFK+V+LDEAD+MT  
Sbjct: 67  DNYRQYFLELNASDERGIDVIRNKVKEFARTVAGG-------NVPFKVVLLDEADNMTAD 119

Query: 153 AQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQE 212
           AQ ALRRTME  T++TRF L CNY+S II+P+ SR + FRF PL +  ++ RL YI + E
Sbjct: 120 AQQALRRTMELYTETTRFILACNYLSKIIEPIQSRTALFRFYPLKKEDVVARLAYIAKNE 179

Query: 213 SVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVI-PKPWIEKL 271
            V  D KALET+ + + GDMR+AI  LQ+ + + G   +  E V +V G+  PK   E +
Sbjct: 180 KVEYDQKALETIYDITQGDMRKAINILQASS-VYG--KVTVEAVYKVLGLAQPKEIREMI 236

Query: 272 ---LKVDSFQVLEKYIEDLILEAYSATQLFDQFH 302
              L+ +  +  EK  E L+    S   +  Q H
Sbjct: 237 MLALQGNFLKAREKLRELLVNYGLSGEDIIKQIH 270

Part of the RFC clamp loader complex which loads the PCNA sliding clamp onto DNA.

Sulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) (taxid: 273063)

>sp|O74111|RFC3_BLAAD Replication factor C subunit 3 OS=Blastobotrys adeninivorans GN=RFC3 PE=3 SV=1

 Score =  239 bits (610), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 123/249 (49%), Positives = 164/249 (65%), Gaps = 16/249 (6%)

Query: 22  VSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTS 81
           V T  K  N  +PWVEKYRP T+D+V   + V++ +KK +    LPH LF+GPPGTGKT+
Sbjct: 7   VETVEKQENS-LPWVEKYRPTTLDEVAGHEGVITTIKKFVEEGKLPHLLFHGPPGTGKTT 65

Query: 82  TMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFA---QQTASGFNQDGKPCPPF 138
           T+IA   Q++G  YR  ILELNASD+RGI V+RD++KTFA   Q  +SG          F
Sbjct: 66  TIIAVARQIYGKNYRNMILELNASDERGIDVVRDQIKTFASTRQIFSSG----------F 115

Query: 139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAE 198
           K+VILDEAD+MT+AAQ ALRR +EK +  TRFC++ NY   +   L SRC++FRF PL E
Sbjct: 116 KLVILDEADAMTNAAQNALRRIIEKYSAHTRFCILANYTHKLNPALLSRCTRFRFSPLKE 175

Query: 199 NTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSC-ARLKGGEGIVNEDVL 257
           + +  RL ++ EQESV    +A ++L+  S GDMRRA+  LQ+C A +  GE I  E V 
Sbjct: 176 DAIKHRLAHVIEQESVDLSPEAFQSLLHLSSGDMRRALNVLQACYASVDAGEQISEELVY 235

Query: 258 EVTGVIPKP 266
           +  G  P+P
Sbjct: 236 DCVGS-PRP 243

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. Subunit 3 binds ATP.

Blastobotrys adeninivorans (taxid: 409370)

>sp|Q54ST4|RFC5_DICDI Probable replication factor C subunit 5 OS=Dictyostelium discoideum GN=rfc5 PE=3 SV=1

 Score =  237 bits (604), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 116/234 (49%), Positives = 154/234 (65%), Gaps = 6/234 (2%)

Query: 33  VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG 92
           +PWVEKYRPK +DD+I  +++   + K +    LPH LFYGPPGTGKTST+ A   +L+G
Sbjct: 24  LPWVEKYRPKNLDDLIAHEDITQTITKLIDNNTLPHLLFYGPPGTGKTSTIQAIARKLYG 83

Query: 93  DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA 152
           D Y   +LELNASDDRGI V+R+++KTFA  +   FN       P+K++ILDEADSMT+ 
Sbjct: 84  DNYSRMVLELNASDDRGIDVVREQIKTFAS-SMFFFNT----TVPYKLIILDEADSMTNI 138

Query: 153 AQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQE 212
           AQ ALRR +EK TK+TRFC++CNYV  II  L SRC++FRF PL       RL+ I E+E
Sbjct: 139 AQTALRRVIEKYTKTTRFCIVCNYVIKIIPALQSRCTRFRFSPLPTPPTEIRLKEIIEKE 198

Query: 213 SVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKP 266
           +V  D KA+  ++E   GDMR+ +  LQS +       I  E + + TG  P P
Sbjct: 199 NVKVDSKAMNAVLELGCGDMRKCLNILQSVSMSSIDNNITEEAIYKCTGY-PMP 251

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins PCNA and activator 1.

Dictyostelium discoideum (taxid: 44689)

>sp|A3DNV9|RFCS_STAMF Replication factor C small subunit OS=Staphylothermus marinus (strain ATCC 43588 / DSM 3639 / F1) GN=rfcS PE=3 SV=1

 Score =  236 bits (603), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 114/211 (54%), Positives = 148/211 (70%), Gaps = 7/211 (3%)

Query: 35  WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM 94
           W EKYRPKT+D++++Q+E+VS LK+ +   ++PH LF GPPGTGKT+      H LFG+ 
Sbjct: 13  WAEKYRPKTLDEIVDQEEIVSRLKQFVKERNMPHLLFAGPPGTGKTTAAHCLAHDLFGEN 72

Query: 95  YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQ 154
           YR+ +LELNASD+RGI VIR KVK FA+   +          PFKIV+LDEAD+MT  AQ
Sbjct: 73  YRQYMLELNASDERGIDVIRSKVKEFARTRVAA-------NIPFKIVLLDEADNMTADAQ 125

Query: 155 AALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESV 214
            ALRR ME  T +TRF LI NY S II+P+ SRC+ FRF PL +  +++RL++I EQE V
Sbjct: 126 QALRRLMEMYTATTRFILIANYPSKIIEPIQSRCAVFRFAPLKKEDVISRLKWIAEQEKV 185

Query: 215 MCDFKALETLVETSGGDMRRAITCLQSCARL 245
             D +ALE + + S GDMRRAI  LQ+ A L
Sbjct: 186 EIDEEALEAIHDLSEGDMRRAINILQAAAAL 216

Part of the RFC clamp loader complex which loads the PCNA sliding clamp onto DNA.

Staphylothermus marinus (strain ATCC 43588 / DSM 3639 / F1) (taxid: 399550)

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	456
193702269	359	PREDICTED: replication factor C subunit	0.699	0.888	0.633	1e-118
91081833	355	PREDICTED: similar to replication factor	0.690	0.887	0.639	1e-114
195038153	356	GH18198 [Drosophila grimshawi] gi|193894	0.699	0.896	0.588	1e-112
195389432	356	GJ23369 [Drosophila virilis] gi|19415146	0.699	0.896	0.594	1e-112
170030843	355	replication factor C subunit 4 [Culex qu	0.688	0.884	0.610	1e-110
157167248	358	replication factor C, 37-kDa subunit, pu	0.697	0.888	0.629	1e-109
156550041	358	PREDICTED: replication factor C subunit	0.695	0.885	0.619	1e-109
346471367	358	hypothetical protein [Amblyomma maculatu	0.688	0.877	0.608	1e-109
195111460	354	GI10150 [Drosophila mojavensis] gi|19391	0.695	0.895	0.578	1e-108
427779307	392	hypothetical protein [Rhipicephalus pulc	0.629	0.732	0.647	1e-108

>gi|193702269|ref|XP_001948634.1| PREDICTED: replication factor C subunit 4-like [Acyrthosiphon pisum]

 Score =  432 bits (1112), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 206/325 (63%), Positives = 254/325 (78%), Gaps = 6/325 (1%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGK--TRNKPVPWVEKYRPKTIDDVIEQQEVVSVLK 58
           M++FL+TGK+ +D  S+S    S  G     N   PWVEKYRP+T+D+V EQ E+V+VLK
Sbjct: 1   MDSFLKTGKINQDQQSTSSGLKSKDGSRGISNSTTPWVEKYRPRTVDEVSEQSEIVAVLK 60

Query: 59  KCL-SGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV 117
           +CL  GAD+PH LFYGPPGTGKTST+IAA  QLFGDMY+ R+LELNASDDRGIQVIRDKV
Sbjct: 61  QCLEQGADMPHLLFYGPPGTGKTSTIIAAARQLFGDMYKNRMLELNASDDRGIQVIRDKV 120

Query: 118 KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYV 177
           KTFAQ TAS    DGKPCPPFKIV+LDEADSMT  AQAALRRT+E+ETK+TRFCLICNYV
Sbjct: 121 KTFAQLTASDRRPDGKPCPPFKIVVLDEADSMTAPAQAALRRTIERETKTTRFCLICNYV 180

Query: 178 SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAIT 237
           SCII PLTSRCSKFRFKPL+   MLTRL++IC++E V C  + L  LV+ SGGDMRRAIT
Sbjct: 181 SCIIDPLTSRCSKFRFKPLSHEIMLTRLEHICKEEGVKCAPRVLARLVDASGGDMRRAIT 240

Query: 238 CLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLL---KVDSFQVLEKYIEDLILEAYSA 294
            LQS ARLKG  GI   DVLEV G +P  W+++++   ++  +Q ++ ++EDLI EAYSA
Sbjct: 241 SLQSTARLKGEVGIEEVDVLEVVGTVPDIWLDRMIDMGRMYDYQKMDGFVEDLIFEAYSA 300

Query: 295 TQLFDQFHDIVMLASSLSDKQKALF 319
           +Q+ +Q HD ++ ++ L D QKA+ 
Sbjct: 301 SQILEQLHDKIVFSTDLKDNQKAII 325

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91081833|ref|XP_974716.1| PREDICTED: similar to replication factor C, 37-kDa subunit, putative [Tribolium castaneum] gi|270006308|gb|EFA02756.1| hypothetical protein TcasGA2_TC008489 [Tribolium castaneum]

 Score =  417 bits (1073), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 206/322 (63%), Positives = 254/322 (78%), Gaps = 7/322 (2%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKC 60
           M+AFL++GKL     S      S+    ++K VPWVEKYRP+T+ DV+EQ E VSVL++C
Sbjct: 1   MQAFLKSGKLDN---SDKSVPSSSKTSKKSKAVPWVEKYRPRTVSDVVEQSEAVSVLQQC 57

Query: 61  LSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF 120
           +SGADLP+ LFYGPPGTGKTST++AA  QLFGD YR+RILELNASD+RGIQVIRDKVKTF
Sbjct: 58  ISGADLPNLLFYGPPGTGKTSTILAAARQLFGDYYRDRILELNASDERGIQVIRDKVKTF 117

Query: 121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCI 180
           AQ TASG   DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE++STRFCLICNYVS I
Sbjct: 118 AQLTASGTRPDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKESRSTRFCLICNYVSRI 177

Query: 181 IQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ 240
           I+PLTSRC+KFRFKPL E  +L RL +IC +E+V C  K L  LVETSGGDMRRAIT LQ
Sbjct: 178 IEPLTSRCTKFRFKPLNEAMILERLSFICGKENVECSDKTLAALVETSGGDMRRAITSLQ 237

Query: 241 SCARLKG-GEGIVNEDVLEVTGVIPKPWIEKLL---KVDSFQVLEKYIEDLILEAYSATQ 296
           SCA+LKG G  I  +DVLEVTGV+P+ W++K L   K      L+ ++++++ EAY+A+Q
Sbjct: 238 SCAKLKGSGVPISIDDVLEVTGVVPERWLKKFLDVCKTKDQNKLQAFLKEMMFEAYAASQ 297

Query: 297 LFDQFHDIVMLASSLSDKQKAL 318
           + +Q +  ++     +D+QKA+
Sbjct: 298 ILEQLNQYIVNFEGFTDQQKAI 319

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195038153|ref|XP_001990525.1| GH18198 [Drosophila grimshawi] gi|193894721|gb|EDV93587.1| GH18198 [Drosophila grimshawi]

 Score =  410 bits (1054), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 190/323 (58%), Positives = 252/323 (78%), Gaps = 4/323 (1%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKC 60
           M+AF + GK      ++ K +++ + + R  P PWVEKYRP+++DDV+EQ EVV+VL+KC
Sbjct: 1   MQAFFKPGKANIGNSATDKQTINATAERRKPPAPWVEKYRPRSVDDVVEQSEVVAVLRKC 60

Query: 61  LSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF 120
           + GADLP+ L YGPPGTGKTST++AA  Q+FGDMYRERILELNASD+RGI V+R K+K F
Sbjct: 61  VEGADLPNMLLYGPPGTGKTSTILAAARQIFGDMYRERILELNASDERGINVVRTKIKNF 120

Query: 121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCI 180
           AQ TAS    DG+PCPPFKI++LDEADSMTHAAQAALRRTMEKE++STRFCLICNYVS I
Sbjct: 121 AQLTASSVRPDGRPCPPFKIIVLDEADSMTHAAQAALRRTMEKESRSTRFCLICNYVSRI 180

Query: 181 IQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ 240
           I P+TSRCSKFRFK L E  ++TRLQ+IC+ ESV  +  A +++V+ SGGDMRRAIT LQ
Sbjct: 181 IVPITSRCSKFRFKALGETQIITRLQHICDLESVSIEPDAYQSIVKISGGDMRRAITTLQ 240

Query: 241 SCARLKGGEGIVN-EDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
           SC RLKG E  +N +D+LE++G+IP+ +++  L+V    +++ LE ++ ++   AYS  Q
Sbjct: 241 SCYRLKGAEHTINSDDLLEMSGIIPEHYLDDYLEVCRSGNYERLEHFVREIGYSAYSVGQ 300

Query: 297 LFDQFHDIVMLASSLSDKQKALF 319
           + +QF + V+   SL+DKQKA+ 
Sbjct: 301 MMEQFVEYVVRCGSLTDKQKAII 323

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195389432|ref|XP_002053381.1| GJ23369 [Drosophila virilis] gi|194151467|gb|EDW66901.1| GJ23369 [Drosophila virilis]

 Score =  410 bits (1054), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 192/323 (59%), Positives = 248/323 (76%), Gaps = 4/323 (1%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKC 60
           M+AFL+TGK      S+ K + +   + R  P PWVEKYRP+++DDV+EQ EVV+VL+KC
Sbjct: 1   MQAFLKTGKSSSGNSSTDKQATNAPTERRKPPAPWVEKYRPRSVDDVVEQSEVVAVLRKC 60

Query: 61  LSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF 120
           + GADLP+ L YGPPGTGKTST++AA  Q+FGDMYR+RILELNASD+RGI V+R K+K F
Sbjct: 61  VEGADLPNMLLYGPPGTGKTSTILAAARQIFGDMYRDRILELNASDERGINVVRTKIKNF 120

Query: 121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCI 180
           AQ TAS    DG+ CPPFKI++LDEADSMTHAAQAALRRTMEKE++STRFCLICNYVS I
Sbjct: 121 AQLTASNVRPDGRSCPPFKIIVLDEADSMTHAAQAALRRTMEKESRSTRFCLICNYVSRI 180

Query: 181 IQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ 240
           I P+TSRCSKFRFK L E  ++ RLQ+ICE E V  D  A +++V  SGGDMRRAIT LQ
Sbjct: 181 IVPITSRCSKFRFKALGETQIIARLQHICELEGVRIDPDAYKSIVRISGGDMRRAITTLQ 240

Query: 241 SCARLKGGEGIVN-EDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
           SC RLKG E  +N +D+LE++G+IP+ ++E  L+V    +++ LE ++ ++   AYS  Q
Sbjct: 241 SCYRLKGAEHTINTDDLLEMSGIIPEHYLEDYLEVCRSGNYERLEHFVREIGYSAYSVGQ 300

Query: 297 LFDQFHDIVMLASSLSDKQKALF 319
           + DQF + ++   SL+DKQKA+ 
Sbjct: 301 MMDQFVEFIVRCGSLTDKQKAII 323

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170030843|ref|XP_001843297.1| replication factor C subunit 4 [Culex quinquefasciatus] gi|167868416|gb|EDS31799.1| replication factor C subunit 4 [Culex quinquefasciatus]

 Score =  406 bits (1043), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 196/321 (61%), Positives = 249/321 (77%), Gaps = 7/321 (2%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKC 60
           M AF +TGK G D  +     V    KT +  VPWVEKYRPK +DDV+EQ EVV+VL++ 
Sbjct: 1   MHAFFKTGKAG-DTTTGDGQPVEKRSKTHS--VPWVEKYRPKNVDDVVEQGEVVAVLRES 57

Query: 61  LSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF 120
           LS ADLP+ L YGPPGTGKTST++AA  QLFGDM++ERILELNASDDRGI VIR+KVKTF
Sbjct: 58  LSTADLPNLLLYGPPGTGKTSTILAAARQLFGDMFKERILELNASDDRGIAVIRNKVKTF 117

Query: 121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCI 180
           AQ  ASG   DGKPCPPFKIVILDEAD+MTHAAQAALRRTMEKETK+TRFCL+CNYVS I
Sbjct: 118 AQLAASGTRPDGKPCPPFKIVILDEADAMTHAAQAALRRTMEKETKTTRFCLVCNYVSRI 177

Query: 181 IQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ 240
           I+P+TSRC+KFRFKPL +  ++ RL++IC+QE+V  + +A + +V+ SGGD+RRAIT LQ
Sbjct: 178 IEPITSRCTKFRFKPLRQEKIIERLRFICDQETVEVEDQAYQDIVDISGGDLRRAITTLQ 237

Query: 241 SCARLKGGEG-IVNEDVLEVTGVIPKPWIEKLL---KVDSFQVLEKYIEDLILEAYSATQ 296
           SC RLKG E  I + D+LE++GV+P+ ++E  +   K  ++  LE Y++ L  +AYS  Q
Sbjct: 238 SCHRLKGKEAKIEHSDILEMSGVVPRKYLEDFVSVCKTSNYSKLEDYVKGLTHDAYSVGQ 297

Query: 297 LFDQFHDIVMLASSLSDKQKA 317
           LF+Q  D +++   L+DKQK+
Sbjct: 298 LFEQLTDFIIMHEGLTDKQKS 318

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157167248|ref|XP_001652243.1| replication factor C, 37-kDa subunit, putative [Aedes aegypti] gi|94469174|gb|ABF18436.1| replication factor C [Aedes aegypti] gi|108877369|gb|EAT41594.1| AAEL006788-PA [Aedes aegypti]

 Score =  402 bits (1033), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 204/324 (62%), Positives = 257/324 (79%), Gaps = 6/324 (1%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGK-TRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKK 59
           M AFL+TGK+  D+PS +  S  +S K T+   VPWVEKYRPK++DDV+EQ EVV+VL++
Sbjct: 1   MHAFLKTGKIS-DSPSKAGPSDGSSEKRTKTHSVPWVEKYRPKSVDDVVEQAEVVAVLRE 59

Query: 60  CLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT 119
            LS ADLP+ L YGPPGTGKTST++AA  QLFGDM++ERILELNASDDRGI VIR+KVKT
Sbjct: 60  SLSTADLPNLLLYGPPGTGKTSTILAAARQLFGDMFKERILELNASDDRGIAVIRNKVKT 119

Query: 120 FAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSC 179
           FAQ TASG   DGKPCPPFKIVILDEAD+MTHAAQAALRRTMEKETK+TRFCL+CNYVS 
Sbjct: 120 FAQLTASGTRTDGKPCPPFKIVILDEADAMTHAAQAALRRTMEKETKTTRFCLVCNYVSR 179

Query: 180 IIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL 239
           II+P+TSRC+KFRFKPL E  ++ RL++ICEQE+V  + +A   +V+ SGGD+RRAIT L
Sbjct: 180 IIEPITSRCTKFRFKPLGEEKVIERLRFICEQENVDVEDQAYREIVDISGGDLRRAITTL 239

Query: 240 QSCARLKGGEG-IVNEDVLEVTGVIPKPWIEKLL---KVDSFQVLEKYIEDLILEAYSAT 295
           QSC RLKG E  I + D+LE++GV+P+ ++E  +   K  ++  LE Y+ +L  +AYS  
Sbjct: 240 QSCHRLKGKEAKIQHTDILEMSGVVPRKYLEDFVSVCKTANYGKLEDYVRNLTYDAYSVG 299

Query: 296 QLFDQFHDIVMLASSLSDKQKALF 319
           QLF+Q  + V+L   LSDKQK++ 
Sbjct: 300 QLFEQLTEFVVLHDGLSDKQKSII 323

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156550041|ref|XP_001605078.1| PREDICTED: replication factor C subunit 4-like [Nasonia vitripennis]

 Score =  401 bits (1031), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 199/321 (61%), Positives = 249/321 (77%), Gaps = 4/321 (1%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKC 60
           M AFL+TGKLG        TS       R K  PWVEKYRPKT++DV+EQ EVV VL++C
Sbjct: 1   MHAFLKTGKLGAAEAKKPSTSKGKESNARAKATPWVEKYRPKTVEDVVEQGEVVEVLRQC 60

Query: 61  LSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF 120
           LSG D P+ L YGPPGTGKTST++AA  QLFG M++ERILELNASD+RGIQV+R+KVK F
Sbjct: 61  LSGGDFPNLLLYGPPGTGKTSTILAAARQLFGSMFKERILELNASDERGIQVVREKVKKF 120

Query: 121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCI 180
           AQ TA     DGKPCPPFKI+ILDEADSMT AAQ+ALRRTMEKE+++TRFCLICNYVS I
Sbjct: 121 AQLTAGNTRPDGKPCPPFKIIILDEADSMTDAAQSALRRTMEKESQTTRFCLICNYVSRI 180

Query: 181 IQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ 240
           I+PLTSRC+KFRFKPL E  ++ RL+YIC +E +  +   L+ +V+ SGGD+RRAITCLQ
Sbjct: 181 IEPLTSRCTKFRFKPLGEEKIIERLEYICGEEDLKAEKSVLKLVVDASGGDLRRAITCLQ 240

Query: 241 SCARLKG-GEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
           S  RLKG G  + N DVLEVTGV+P  W++ LL+V    ++  +E Y++  +LEAYSA+Q
Sbjct: 241 SVTRLKGIGIEVTNNDVLEVTGVVPTKWLDDLLRVCETKNYNEVEAYVDKFMLEAYSASQ 300

Query: 297 LFDQFHDIVMLASSLSDKQKA 317
           + DQ +DIV+ +++L+DKQKA
Sbjct: 301 VVDQLNDIVIYSNTLTDKQKA 321

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|346471367|gb|AEO35528.1| hypothetical protein [Amblyomma maculatum]

 Score =  400 bits (1028), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 196/322 (60%), Positives = 240/322 (74%), Gaps = 8/322 (2%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPV--PWVEKYRPKTIDDVIEQQEVVSVLK 58
           M AFL++       P   K     S +T  KPV  PWVEKYRPKT+DDV  Q EVVSVLK
Sbjct: 1   MHAFLKSANPNLAFP---KEKTKESKQTAKKPVHIPWVEKYRPKTVDDVAHQDEVVSVLK 57

Query: 59  KCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVK 118
           K L GADLP+ LFYGPPGTGKTST++A   +LFGDMY+ RILELNASD+RGIQV+R+K+K
Sbjct: 58  KSLQGADLPNLLFYGPPGTGKTSTILALARELFGDMYKSRILELNASDERGIQVVREKIK 117

Query: 119 TFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS 178
           TF+Q TA     DGKPCPPFKIVILDEADSMT +AQAALRRTMEKETKSTRFCLICNY+S
Sbjct: 118 TFSQLTAHAVGPDGKPCPPFKIVILDEADSMTASAQAALRRTMEKETKSTRFCLICNYIS 177

Query: 179 CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITC 238
            II PLTSRCSKFRFKPL +  +L RL+ IC  E V C+ + L+ L++   GDMRRAIT 
Sbjct: 178 RIIDPLTSRCSKFRFKPLPKEVLLERLRSICTAEGVQCEDEVLDFLMDACEGDMRRAITL 237

Query: 239 LQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLL---KVDSFQVLEKYIEDLILEAYSAT 295
            QS +RLK  E + + DV EV G+I K WI+ LL     +S++ L   +EDL+LE ++A+
Sbjct: 238 FQSVSRLKCDEPVTSHDVAEVAGIISKKWIDDLLASCASNSYEKLSATVEDLVLEGFAAS 297

Query: 296 QLFDQFHDIVMLASSLSDKQKA 317
           QLF Q HD ++L+++ +DKQK+
Sbjct: 298 QLFSQLHDTIVLSTNYNDKQKS 319

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195111460|ref|XP_002000296.1| GI10150 [Drosophila mojavensis] gi|193916890|gb|EDW15757.1| GI10150 [Drosophila mojavensis]

 Score =  400 bits (1027), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 187/323 (57%), Positives = 249/323 (77%), Gaps = 6/323 (1%)

Query: 1   MEAFLRTGKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKC 60
           M+AFL+ GK      ++ K + +   + R  P PWVEKYRP++++DV+EQ EVV+VL+KC
Sbjct: 1   MQAFLKAGKSANG--TTEKQASNAPTERRKPPAPWVEKYRPRSVEDVVEQSEVVAVLRKC 58

Query: 61  LSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF 120
           + GADLP+ L YGPPGTGKTST++AA  Q+FGDMYR+RILELNASD+RGI V+R K+K F
Sbjct: 59  VEGADLPNMLLYGPPGTGKTSTILAAARQIFGDMYRDRILELNASDERGINVVRTKIKNF 118

Query: 121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCI 180
           AQ TAS    DG+PCPPFKI++LDEADSMTHAAQAALRRTMEKE++STRFCLICNYVS I
Sbjct: 119 AQLTASNVRPDGRPCPPFKIIVLDEADSMTHAAQAALRRTMEKESRSTRFCLICNYVSRI 178

Query: 181 IQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ 240
           I P+TSRCSKFRFK L E  ++ RL++IC QE+V  D  A +++V+ SGGDMRRAIT LQ
Sbjct: 179 IVPITSRCSKFRFKALGETQIIARLKHICMQENVNIDPDAYKSIVKISGGDMRRAITTLQ 238

Query: 241 SCARLKGGEGIVN-EDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
           SC RLKG +  +N +D+LE++G+IP+ ++E  L+V     ++ LE ++ ++   AYS  Q
Sbjct: 239 SCYRLKGSDHTINTDDLLEMSGIIPEHYLEDYLEVCRSGKYERLEHFVREIGYSAYSVGQ 298

Query: 297 LFDQFHDIVMLASSLSDKQKALF 319
           + +QF + ++   SL+DKQKA+ 
Sbjct: 299 MMEQFVEFIVRCGSLTDKQKAII 321

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427779307|gb|JAA55105.1| hypothetical protein [Rhipicephalus pulchellus]

 Score =  399 bits (1024), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 189/292 (64%), Positives = 232/292 (79%), Gaps = 5/292 (1%)

Query: 31  KPV--PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACH 88
           KPV  PWVEKYRPKT+DDV  Q EVVSVLKK L GADLP+ LFYGPPGTGKTST++A   
Sbjct: 62  KPVQIPWVEKYRPKTVDDVAHQDEVVSVLKKSLQGADLPNLLFYGPPGTGKTSTILALAR 121

Query: 89  QLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADS 148
           +LFGDMY+ RILELNASD+RGIQV+R+K+KTF+Q TASG   DGKPCPP+KIVILDEADS
Sbjct: 122 ELFGDMYKSRILELNASDERGIQVVREKIKTFSQLTASGTGPDGKPCPPYKIVILDEADS 181

Query: 149 MTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYI 208
           MT +AQAALRRTMEKETK+TRFCLICNY+S II PLTSRCSKFRFKPL ++ +L RL+ I
Sbjct: 182 MTASAQAALRRTMEKETKTTRFCLICNYISRIIDPLTSRCSKFRFKPLPKDILLERLRNI 241

Query: 209 CEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWI 268
           C  E+V CD + L+ L++   GDMRRAIT  QS +RLK  E + +EDV EV G+IP  W+
Sbjct: 242 CTAEAVQCDDQVLDFLMDACEGDMRRAITLFQSVSRLKCNEQVTSEDVAEVAGIIPNQWV 301

Query: 269 EKLL---KVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKA 317
           + LL     +S++ L   +EDL+LE ++A+QLF Q HD ++L++   DKQK+
Sbjct: 302 DGLLTSCASNSYEKLSATVEDLVLEGFAASQLFSQLHDAIVLSNKYDDKQKS 353

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

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	456
FB|FBgn0030871	353	CG8142 [Drosophila melanogaste	0.688	0.889	0.570	2.9e-96
UNIPROTKB|Q29RS9	337	RFC4 "Uncharacterized protein"	0.572	0.774	0.591	1.3e-94
UNIPROTKB|C9JZI1	336	RFC4 "Replication factor C sub	0.572	0.776	0.595	8.9e-94
UNIPROTKB|F1NEW1	362	RFC4 "Uncharacterized protein"	0.712	0.897	0.571	1.1e-92
UNIPROTKB|F1NIY0	359	RFC4 "Uncharacterized protein"	0.712	0.905	0.571	1.1e-92
UNIPROTKB|E2R2M6	363	RFC4 "Uncharacterized protein"	0.712	0.895	0.564	6.3e-92
UNIPROTKB|P35249	363	RFC4 "Replication factor C sub	0.710	0.892	0.559	9.3e-91
RGD|1310142	364	Rfc4 "replication factor C (ac	0.644	0.807	0.615	2.5e-90
ZFIN|ZDB-GENE-040824-3	358	rfc4 "replication factor C (ac	0.695	0.885	0.546	8.3e-90
UNIPROTKB|F1SFI3	366	RFC4 "Uncharacterized protein"	0.712	0.887	0.547	2.8e-89

FB|FBgn0030871 CG8142 [Drosophila melanogaster (taxid:7227)]

 Score = 957 (341.9 bits), Expect = 2.9e-96, P = 2.9e-96
 Identities = 183/321 (57%), Positives = 240/321 (74%)

Query:     1 MEAFLRTGKLGKDAPXXXXXXXXXXXXXRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKC 60
             M+AFL+TGK                   R  P PWVEKYRP+ +DDV+EQ EVV+VL+KC
Sbjct:     1 MQAFLKTGK---STAGSGDKSQGTPAARRKPPAPWVEKYRPRNVDDVVEQSEVVAVLRKC 57

Query:    61 LSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF 120
             + G DLP+ L YGPPGTGKTST++AA  Q+FGDM+++RILELNASD+RGI V+R K+K F
Sbjct:    58 VEGGDLPNMLLYGPPGTGKTSTILAASRQIFGDMFKDRILELNASDERGINVVRTKIKNF 117

Query:   121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCI 180
             +Q +AS    DGKPCPPFKI+ILDEADSMTHAAQ+ALRRTMEKE++STRFCLICNYVS I
Sbjct:   118 SQLSASSVRPDGKPCPPFKIIILDEADSMTHAAQSALRRTMEKESRSTRFCLICNYVSRI 177

Query:   181 IQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ 240
             I P+TSRCSKFRFK L E+ ++ RL+YICE E V  +  A +++V+ SGGD+RRAIT LQ
Sbjct:   178 IVPITSRCSKFRFKALGEDKVIDRLKYICEMEGVKIEDDAYKSIVKISGGDLRRAITTLQ 237

Query:   241 SCARLKGGEGIVNE-DVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
             SC RLKG E I+N  D+ E++GVIP+ ++E  L+V    +++ LE+++ ++   AYS  Q
Sbjct:   238 SCYRLKGPEHIINTADLFEMSGVIPEYYLEDYLEVCRSGNYERLEQFVREIGFSAYSVGQ 297

Query:   297 LFDQFHDIVMLASSLSDKQKA 317
             + +QF + ++    L+D QKA
Sbjct:   298 MMEQFVEFIVHHPGLNDPQKA 318

GO:0003677 "DNA binding" evidence=ISS

GO:0006260 "DNA replication" evidence=ISS

GO:0005663 "DNA replication factor C complex" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA

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

GO:0031122 "cytoplasmic microtubule organization" evidence=IMP

GO:0005875 "microtubule associated complex" evidence=IDA

GO:0046331 "lateral inhibition" evidence=IMP

UNIPROTKB|Q29RS9 RFC4 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 798 (286.0 bits), Expect = 1.3e-94, Sum P(2) = 1.3e-94
 Identities = 158/267 (59%), Positives = 195/267 (73%)

Query:     1 MEAFLRTGKLGKDAPXX-----XXXXXXXXXXXRNKPVPWVEKYRPKTIDDVIEQQEVVS 55
             M+AFL+   +    P                  + KPVPWVEKYRPK +D+V  Q+EVV+
Sbjct:     1 MQAFLKGASISTKPPPTKDRGVTATARSSGENKKAKPVPWVEKYRPKCVDEVAFQEEVVA 60

Query:    56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIR 114
             VLKK L GADLP+ LFYGPPGTGKTST++AA  +LFG +++R R+LELNASD+RGIQV+R
Sbjct:    61 VLKKSLEGADLPNLLFYGPPGTGKTSTILAAARELFGPELFRLRVLELNASDERGIQVVR 120

Query:   115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLIC 174
             +KVK FAQ T SG   DGKPCPPFKIVILDEADSMT AAQAALRRTMEKE+K+TRFCLIC
Sbjct:   121 EKVKNFAQLTVSGSRSDGKPCPPFKIVILDEADSMTSAAQAALRRTMEKESKTTRFCLIC 180

Query:   175 NYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRR 234
             NYVS II+PLTSRCSKFRFKPL++     RL  I ++E V    + +  LV+ S GD+R+
Sbjct:   181 NYVSRIIEPLTSRCSKFRFKPLSDKIQQQRLLDIADKEHVKISNEGIAYLVQVSEGDLRK 240

Query:   235 AITCLQSCARLKGGEGIVNEDVLEVTG 261
             AIT LQS  RL GG+ +  + + ++ G
Sbjct:   241 AITFLQSATRLTGGKEVTEKVITDIAG 267

GO:0005663 "DNA replication factor C complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0006260 "DNA replication" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|C9JZI1 RFC4 "Replication factor C subunit 4" [Homo sapiens (taxid:9606)]

 Score = 798 (286.0 bits), Expect = 8.9e-94, Sum P(2) = 8.9e-94
 Identities = 159/267 (59%), Positives = 196/267 (73%)

Query:     1 MEAFLRTGKLGKDAPXX-----XXXXXXXXXXXRNKPVPWVEKYRPKTIDDVIEQQEVVS 55
             M+AFL+   +    P                  + KPVPWVEKYRPK +D+V  Q+EVV+
Sbjct:     1 MQAFLKGTSISTKPPLTKDRGVAASAGSSGENKKAKPVPWVEKYRPKCVDEVAFQEEVVA 60

Query:    56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIR 114
             VLKK L GADLP+ LFYGPPGTGKTST++AA  +LFG +++R R+LELNASD+RGIQV+R
Sbjct:    61 VLKKSLEGADLPNLLFYGPPGTGKTSTILAAARELFGPELFRLRVLELNASDERGIQVVR 120

Query:   115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLIC 174
             +KVK FAQ T SG   DGKPCPPFKIVILDEADSMT AAQAALRRTMEKE+K+TRFCLIC
Sbjct:   121 EKVKNFAQLTVSGSRSDGKPCPPFKIVILDEADSMTSAAQAALRRTMEKESKTTRFCLIC 180

Query:   175 NYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRR 234
             NYVS II+PLTSRCSKFRFKPL++     RL  I ++E+V    + +  LV+ S GD+R+
Sbjct:   181 NYVSRIIEPLTSRCSKFRFKPLSDKIQQQRLLDIAKKENVKISDEGIAYLVKVSEGDLRK 240

Query:   235 AITCLQSCARLKGGEGIVNEDVLEVTG 261
             AIT LQS  RL GG+ I  + + ++ G
Sbjct:   241 AITFLQSATRLTGGKEITEKVITDIAG 267

GO:0003677 "DNA binding" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|F1NEW1 RFC4 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 923 (330.0 bits), Expect = 1.1e-92, P = 1.1e-92
 Identities = 191/334 (57%), Positives = 238/334 (71%)

Query:     1 MEAFLR-TGKLGKDAPXXXXXXXXXXXXX--RNKPVPWVEKYRPKTIDDVIEQQEVVSVL 57
             M+AFL+    +    P               + KPVPWVEKYRPK +D+V  Q EVV+VL
Sbjct:     1 MQAFLKGPSSISSKPPAAKERSAAGSSGEGKKLKPVPWVEKYRPKNVDEVAFQDEVVAVL 60

Query:    58 KKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIRDK 116
             KK L GADLP+ LFYGPPGTGKTST++AA  +LFG +++R+R+LELNASD+RGIQVIR+K
Sbjct:    61 KKSLEGADLPNLLFYGPPGTGKTSTILAAARELFGPELFRQRVLELNASDERGIQVIREK 120

Query:   117 VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY 176
             VK FAQ TASG   DGK CPPFKIVILDEADSMT AAQAALRRTMEKE+K+TRFCLICNY
Sbjct:   121 VKAFAQLTASGSRADGKVCPPFKIVILDEADSMTSAAQAALRRTMEKESKTTRFCLICNY 180

Query:   177 VSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAI 236
             +S II+PLTSRCSKFRFKPL++     RL  + E+E+V    +A+  LV+ S GD+R+AI
Sbjct:   181 ISRIIEPLTSRCSKFRFKPLSDKIQQQRLLDVSEKENVKITSEAVSYLVKVSDGDLRKAI 240

Query:   237 TCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYS 293
             T LQS  RL GG+ I  + V E+ GVIP+  I+ LL      SF+ LE   ++LI E Y+
Sbjct:   241 TYLQSATRLMGGKEITEKTVTEIAGVIPRETIDGLLSACSSGSFEKLETVAKNLINEGYA 300

Query:   294 ATQLFDQFHDIVMLASSLSDKQKALFKALETLVE 327
               QL +Q HDIV+ +   SDKQK++   +E L E
Sbjct:   301 VAQLVNQLHDIVVESEDFSDKQKSII--VEKLAE 332

GO:0003677 "DNA binding" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0005663 "DNA replication factor C complex" evidence=IEA

UNIPROTKB|F1NIY0 RFC4 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 923 (330.0 bits), Expect = 1.1e-92, P = 1.1e-92
 Identities = 191/334 (57%), Positives = 238/334 (71%)

Query:     1 MEAFLR-TGKLGKDAPXXXXXXXXXXXXX--RNKPVPWVEKYRPKTIDDVIEQQEVVSVL 57
             M+AFL+    +    P               + KPVPWVEKYRPK +D+V  Q EVV+VL
Sbjct:     1 MQAFLKGPSSISSKPPAAKERSAAGSSGEGKKLKPVPWVEKYRPKNVDEVAFQDEVVAVL 60

Query:    58 KKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIRDK 116
             KK L GADLP+ LFYGPPGTGKTST++AA  +LFG +++R+R+LELNASD+RGIQVIR+K
Sbjct:    61 KKSLEGADLPNLLFYGPPGTGKTSTILAAARELFGPELFRQRVLELNASDERGIQVIREK 120

Query:   117 VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY 176
             VK FAQ TASG   DGK CPPFKIVILDEADSMT AAQAALRRTMEKE+K+TRFCLICNY
Sbjct:   121 VKAFAQLTASGSRADGKVCPPFKIVILDEADSMTSAAQAALRRTMEKESKTTRFCLICNY 180

Query:   177 VSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAI 236
             +S II+PLTSRCSKFRFKPL++     RL  + E+E+V    +A+  LV+ S GD+R+AI
Sbjct:   181 ISRIIEPLTSRCSKFRFKPLSDKIQQQRLLDVSEKENVKITSEAVSYLVKVSDGDLRKAI 240

Query:   237 TCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYS 293
             T LQS  RL GG+ I  + V E+ GVIP+  I+ LL      SF+ LE   ++LI E Y+
Sbjct:   241 TYLQSATRLMGGKEITEKTVTEIAGVIPRETIDGLLSACSSGSFEKLETVAKNLINEGYA 300

Query:   294 ATQLFDQFHDIVMLASSLSDKQKALFKALETLVE 327
               QL +Q HDIV+ +   SDKQK++   +E L E
Sbjct:   301 VAQLVNQLHDIVVESEDFSDKQKSII--VEKLAE 332

GO:0003677 "DNA binding" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0005663 "DNA replication factor C complex" evidence=IEA

UNIPROTKB|E2R2M6 RFC4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 916 (327.5 bits), Expect = 6.3e-92, P = 6.3e-92
 Identities = 189/335 (56%), Positives = 236/335 (70%)

Query:     1 MEAFLRTGKLGKDAPXXXXXXXXXXXXX----RNKPVPWVEKYRPKTIDDVIEQQEVVSV 56
             M+AFL+   +    P                 + KPVPWVEKYRPK +D+V  Q+EVV+V
Sbjct:     1 MQAFLKGTSVSTKPPLKDRGIAATAGSSGENKKTKPVPWVEKYRPKCVDEVAFQEEVVAV 60

Query:    57 LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIRD 115
             LKK L GADLP+ LFYGPPGTGKTST++AA  +LFG +++R R+LELNASD+RGIQV+R+
Sbjct:    61 LKKSLEGADLPNLLFYGPPGTGKTSTILAAARELFGPELFRLRVLELNASDERGIQVVRE 120

Query:   116 KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN 175
             KVK FAQ T SG   DGKPCPPFKIVILDEADSMT AAQAALRRTMEKE+K+TRFCLICN
Sbjct:   121 KVKNFAQLTVSGSRSDGKPCPPFKIVILDEADSMTSAAQAALRRTMEKESKTTRFCLICN 180

Query:   176 YVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRA 235
             YVS II+PLTSRCSKFRFKPL++     RL  I ++E V    + +  LV+ S GD+R+A
Sbjct:   181 YVSRIIEPLTSRCSKFRFKPLSDKIQQQRLLDIADKEHVKVSNEGIAYLVKVSEGDLRKA 240

Query:   236 ITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAY 292
             IT LQS  RL GG+ I  + + ++ GVIP   I+ +       SF  LE  ++DLI E +
Sbjct:   241 ITFLQSATRLTGGKEITEKVITDIAGVIPAGTIDGIFAACQSGSFDKLEAVVKDLIDEGH 300

Query:   293 SATQLFDQFHDIVMLASSLSDKQKALFKALETLVE 327
             +ATQL  QFHD+V+   +LSDKQK++    E L E
Sbjct:   301 AATQLVSQFHDVVVENDNLSDKQKSIIT--EKLAE 333

GO:0005663 "DNA replication factor C complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0006260 "DNA replication" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|P35249 RFC4 "Replication factor C subunit 4" [Homo sapiens (taxid:9606)]

 Score = 905 (323.6 bits), Expect = 9.3e-91, P = 9.3e-91
 Identities = 188/336 (55%), Positives = 238/336 (70%)

Query:     1 MEAFLRTGKLGKDAPXX-----XXXXXXXXXXXRNKPVPWVEKYRPKTIDDVIEQQEVVS 55
             M+AFL+   +    P                  + KPVPWVEKYRPK +D+V  Q+EVV+
Sbjct:     1 MQAFLKGTSISTKPPLTKDRGVAASAGSSGENKKAKPVPWVEKYRPKCVDEVAFQEEVVA 60

Query:    56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIR 114
             VLKK L GADLP+ LFYGPPGTGKTST++AA  +LFG +++R R+LELNASD+RGIQV+R
Sbjct:    61 VLKKSLEGADLPNLLFYGPPGTGKTSTILAAARELFGPELFRLRVLELNASDERGIQVVR 120

Query:   115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLIC 174
             +KVK FAQ T SG   DGKPCPPFKIVILDEADSMT AAQAALRRTMEKE+K+TRFCLIC
Sbjct:   121 EKVKNFAQLTVSGSRSDGKPCPPFKIVILDEADSMTSAAQAALRRTMEKESKTTRFCLIC 180

Query:   175 NYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRR 234
             NYVS II+PLTSRCSKFRFKPL++     RL  I ++E+V    + +  LV+ S GD+R+
Sbjct:   181 NYVSRIIEPLTSRCSKFRFKPLSDKIQQQRLLDIAKKENVKISDEGIAYLVKVSEGDLRK 240

Query:   235 AITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEA 291
             AIT LQS  RL GG+ I  + + ++ GVIP   I+ +       SF  LE  ++DLI E 
Sbjct:   241 AITFLQSATRLTGGKEITEKVITDIAGVIPAEKIDGVFAACQSGSFDKLEAVVKDLIDEG 300

Query:   292 YSATQLFDQFHDIVMLASSLSDKQKALFKALETLVE 327
             ++ATQL +Q HD+V+  ++LSDKQK++    E L E
Sbjct:   301 HAATQLVNQLHDVVV-ENNLSDKQKSIIT--EKLAE 333

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0005663 "DNA replication factor C complex" evidence=IDA

GO:0048015 "phosphatidylinositol-mediated signaling" evidence=NAS

GO:0006260 "DNA replication" evidence=NAS;TAS

GO:0006281 "DNA repair" evidence=NAS;TAS

GO:0005515 "protein binding" evidence=IPI

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006271 "DNA strand elongation involved in DNA replication" evidence=TAS

GO:0006283 "transcription-coupled nucleotide-excision repair" evidence=TAS

GO:0006289 "nucleotide-excision repair" evidence=TAS

GO:0006297 "nucleotide-excision repair, DNA gap filling" evidence=TAS

GO:0032201 "telomere maintenance via semi-conservative replication" evidence=TAS

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0000722 "telomere maintenance via recombination" evidence=TAS

GO:0000723 "telomere maintenance" evidence=TAS

RGD|1310142 Rfc4 "replication factor C (activator 1) 4" [Rattus norvegicus (taxid:10116)]

 Score = 901 (322.2 bits), Expect = 2.5e-90, P = 2.5e-90
 Identities = 186/302 (61%), Positives = 230/302 (76%)

Query:    31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL 90
             KPVPWVEKYRPK +D+V  Q+EVV+VLKK L GADLP+ LFYGPPGTGKTST++AA  +L
Sbjct:    36 KPVPWVEKYRPKCVDEVAFQEEVVAVLKKSLEGADLPNLLFYGPPGTGKTSTILAAAREL 95

Query:    91 FG-DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM 149
             FG +++R R+LELNASD+RGIQV+R+KVK FAQ T SG   DGKPCPPFKIVILDEADSM
Sbjct:    96 FGPELFRLRVLELNASDERGIQVVREKVKNFAQLTVSGSRSDGKPCPPFKIVILDEADSM 155

Query:   150 THAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYIC 209
             T AAQAALRRTMEKE+K+TRFCLICNYVS II+PLTSRCSKFRFKPL++     RL  I 
Sbjct:   156 TSAAQAALRRTMEKESKTTRFCLICNYVSRIIEPLTSRCSKFRFKPLSDKIQQKRLLDIA 215

Query:   210 EQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVL-EVTGVIPKPWI 268
             E+E+V    + +  LV  S GD+R+AIT LQS  RL GG+ I +EDV+ ++ GVIP   I
Sbjct:   216 EKENVKIGDEEIAYLVRISEGDLRKAITFLQSATRLTGGKEI-SEDVITDIAGVIPAATI 274

Query:   269 EKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETL 325
             E ++      SF  LE  +++LI E ++ATQL +Q HD ++   +LSDKQK++    E L
Sbjct:   275 EGIVTACHSGSFDKLEAVLKNLIDEGHAATQLVNQLHDSIIEDENLSDKQKSIIT--EKL 332

Query:   326 VE 327
              E
Sbjct:   333 AE 334

GO:0003674 "molecular_function" evidence=ND

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005663 "DNA replication factor C complex" evidence=ISO

GO:0006260 "DNA replication" evidence=IEA

GO:0008150 "biological_process" evidence=ND

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

ZFIN|ZDB-GENE-040824-3 rfc4 "replication factor C (activator 1) 4" [Danio rerio (taxid:7955)]

 Score = 896 (320.5 bits), Expect = 8.3e-90, P = 8.3e-90
 Identities = 176/322 (54%), Positives = 231/322 (71%)

Query:     1 MEAFLRTGKLGKDAPXXXXXXXXXXXXXRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKC 60
             M+AFL+                      + + VPWVEKYRPK +D+V  Q+EVV+VLKK 
Sbjct:     1 MQAFLKGSSSQSVKAQKPSSSSSSGGEKKQRAVPWVEKYRPKCVDEVAFQEEVVAVLKKS 60

Query:    61 LSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIRDKVKT 119
             L GADLP+ LFYGPPGTGKTST++AA  +L+G D+YR+R+LELNASD+RGIQV+R+KVK 
Sbjct:    61 LEGADLPNLLFYGPPGTGKTSTILAAARELYGPDLYRQRVLELNASDERGIQVVREKVKR 120

Query:   120 FAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSC 179
             FAQ T +G   DGK CPPFKI+ILDEADSMT AAQAALRRTMEKE+++TRFCLICNYVS 
Sbjct:   121 FAQLTVAGTRPDGKTCPPFKIIILDEADSMTSAAQAALRRTMEKESRTTRFCLICNYVSR 180

Query:   180 IIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL 239
             II+PLTSRCSKFRFKPLA +    R+  IC +E++    + ++ LV  S GD+R+AIT L
Sbjct:   181 IIEPLTSRCSKFRFKPLANDVQQERILEICRKENLKYTTEGVDALVRVSEGDLRKAITFL 240

Query:   240 QSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ 296
             QS ARL     I  + ++E+ GV+P   I+ LL +    +F+ LE  ++D+I + Y+AT 
Sbjct:   241 QSGARLNSEREITEQTIIEIAGVVPPKVIQSLLHICYKGTFEKLEVAVKDMIDQGYAATN 300

Query:   297 LFDQFHDIVMLASSLSDKQKAL 318
             L +Q HD++ +   LSDKQK++
Sbjct:   301 LLNQLHDVI-IEEQLSDKQKSV 321

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0060041 "retina development in camera-type eye" evidence=IMP

UNIPROTKB|F1SFI3 RFC4 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 891 (318.7 bits), Expect = 2.8e-89, P = 2.8e-89
 Identities = 185/338 (54%), Positives = 236/338 (69%)

Query:     1 MEAFLRTGKLGKDAPXX-----XXXXXXXXXXXRNKPVPWVEKYRPKTIDDVIEQQEVVS 55
             M+AFL+   +    P                  + KPVPWVEKYRPK +D+V  Q+EVV+
Sbjct:     1 MQAFLKGTSISTKPPLTKDRGVAATARSSGENKKAKPVPWVEKYRPKCVDEVAFQEEVVA 60

Query:    56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIR 114
             VLKK L GADLP+ LFYGPPGTGKTST++AA  +LFG +++R R+LELNASD+RGIQV+R
Sbjct:    61 VLKKSLEGADLPNLLFYGPPGTGKTSTILAAARELFGPELFRLRVLELNASDERGIQVVR 120

Query:   115 DKVKTFAQQTASGFNQD--GKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL 172
             +KVK FAQ T SG   +  GKPCPPFKIVILDEADSMT AAQAALRRTMEKE+K+TRFCL
Sbjct:   121 EKVKNFAQLTVSGSRSEISGKPCPPFKIVILDEADSMTSAAQAALRRTMEKESKTTRFCL 180

Query:   173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDM 232
             ICNYVS II+PLTSRCSKFRFKPL++     RL  I ++E V    + +  LV+ S GD+
Sbjct:   181 ICNYVSRIIEPLTSRCSKFRFKPLSDKIQQQRLLDIADKEHVKISDEGIAYLVKVSEGDL 240

Query:   233 RRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLIL 289
             R+AIT LQS  RL GG+ +  + + ++ GV+P   I+ +L      SF  LE  ++DLI 
Sbjct:   241 RKAITFLQSATRLTGGKEVTEKMITDIAGVVPTETIDGVLAACQSGSFDKLEAVVKDLID 300

Query:   290 EAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVE 327
             E ++ATQ  +Q HD+V+   +LSDKQK++    E L E
Sbjct:   301 EGHAATQFVNQLHDVVVENDNLSDKQKSVIT--EKLAE 336

GO:0005663 "DNA replication factor C complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0006260 "DNA replication" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q09843	RFC2_SCHPO	No assigned EC number	0.5016	0.6513	0.8735	yes	N/A
O26343	RFCS_METTH	No assigned EC number	0.3703	0.6118	0.8691	yes	N/A
P40348	RFC2_YEAST	No assigned EC number	0.5266	0.5921	0.7648	yes	N/A
Q9UXF5	RFCS_SULSO	No assigned EC number	0.5138	0.4583	0.6333	yes	N/A
P53016	RFC4_CAEEL	No assigned EC number	0.5067	0.4802	0.6556	yes	N/A
P35249	RFC4_HUMAN	No assigned EC number	0.5701	0.6973	0.8760	yes	N/A
O28219	RFCS_ARCFU	No assigned EC number	0.5022	0.4780	0.6833	yes	N/A
Q99J62	RFC4_MOUSE	No assigned EC number	0.5636	0.6951	0.8708	yes	N/A
Q54MD4	RFC4_DICDI	No assigned EC number	0.4744	0.6118	0.8040	yes	N/A
Q9YBS7	RFCS_AERPE	No assigned EC number	0.5260	0.4473	0.6276	yes	N/A
A3DNV9	RFCS_STAMF	No assigned EC number	0.5402	0.4473	0.6200	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	456
PRK00440	319	PRK00440, rfc, replication factor C small subunit;	1e-99
PLN03025	319	PLN03025, PLN03025, replication factor C subunit;	2e-76
PRK12402	337	PRK12402, PRK12402, replication factor C small sub	4e-49
PRK04132	846	PRK04132, PRK04132, replication factor C small sub	2e-44
PHA02544	316	PHA02544, 44, clamp loader, small subunit; Provisi	4e-38
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-36
PRK14953	486	PRK14953, PRK14953, DNA polymerase III subunits ga	8e-29
TIGR02397	355	TIGR02397, dnaX_nterm, DNA polymerase III, subunit	1e-28
PRK14962	472	PRK14962, PRK14962, DNA polymerase III subunits ga	3e-26
COG2812	515	COG2812, DnaX, DNA polymerase III, gamma/tau subun	2e-23
PRK07133	725	PRK07133, PRK07133, DNA polymerase III subunits ga	1e-21
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	4e-21
PRK05563	559	PRK05563, PRK05563, DNA polymerase III subunits ga	3e-20
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	6e-20
PRK14961	363	PRK14961, PRK14961, DNA polymerase III subunits ga	2e-17
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	3e-17
PRK14965	576	PRK14965, PRK14965, DNA polymerase III subunits ga	5e-17
PRK14963	504	PRK14963, PRK14963, DNA polymerase III subunits ga	1e-16
PRK14970	367	PRK14970, PRK14970, DNA polymerase III subunits ga	1e-16
PRK06645	507	PRK06645, PRK06645, DNA polymerase III subunits ga	2e-16
PRK14950	585	PRK14950, PRK14950, DNA polymerase III subunits ga	1e-15
COG0470	230	COG0470, HolB, ATPase involved in DNA replication	4e-15
PRK08451	535	PRK08451, PRK08451, DNA polymerase III subunits ga	1e-14
PRK08691	709	PRK08691, PRK08691, DNA polymerase III subunits ga	2e-14
PRK06305	451	PRK06305, PRK06305, DNA polymerase III subunits ga	3e-14
PRK00440	319	PRK00440, rfc, replication factor C small subunit;	1e-13
PRK14969	527	PRK14969, PRK14969, DNA polymerase III subunits ga	3e-13
TIGR00678	188	TIGR00678, holB, DNA polymerase III, delta' subuni	5e-13
PRK04132	846	PRK04132, PRK04132, replication factor C small sub	1e-12
PRK14964	491	PRK14964, PRK14964, DNA polymerase III subunits ga	1e-12
PRK05896	605	PRK05896, PRK05896, DNA polymerase III subunits ga	2e-12
PRK14971	614	PRK14971, PRK14971, DNA polymerase III subunits ga	5e-12
pfam08542	89	pfam08542, Rep_fac_C, Replication factor C C-termi	7e-12
PRK14956	484	PRK14956, PRK14956, DNA polymerase III subunits ga	1e-11
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	1e-11
PRK14951	618	PRK14951, PRK14951, DNA polymerase III subunits ga	1e-11
PRK14952	584	PRK14952, PRK14952, DNA polymerase III subunits ga	2e-11
PRK14955	397	PRK14955, PRK14955, DNA polymerase III subunits ga	7e-11
PRK14954	620	PRK14954, PRK14954, DNA polymerase III subunits ga	1e-10
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	1e-10
pfam13177	161	pfam13177, DNA_pol3_delta2, DNA polymerase III, de	1e-10
PRK14959	624	PRK14959, PRK14959, DNA polymerase III subunits ga	4e-10
PRK12323	700	PRK12323, PRK12323, DNA polymerase III subunits ga	7e-10
PRK14960	702	PRK14960, PRK14960, DNA polymerase III subunits ga	7e-10
PRK07399	314	PRK07399, PRK07399, DNA polymerase III subunit del	1e-09
PRK14957	546	PRK14957, PRK14957, DNA polymerase III subunits ga	1e-09
PRK07003	830	PRK07003, PRK07003, DNA polymerase III subunits ga	2e-08
PRK14958	509	PRK14958, PRK14958, DNA polymerase III subunits ga	2e-08
PRK06647	563	PRK06647, PRK06647, DNA polymerase III subunits ga	3e-08
smart00382	148	smart00382, AAA, ATPases associated with a variety	5e-08
PRK12402	337	PRK12402, PRK12402, replication factor C small sub	1e-07
PRK14948	620	PRK14948, PRK14948, DNA polymerase III subunits ga	2e-07
TIGR02902	531	TIGR02902, spore_lonB, ATP-dependent protease LonB	2e-07
PRK09112	351	PRK09112, PRK09112, DNA polymerase III subunit del	3e-07
TIGR00602	637	TIGR00602, rad24, checkpoint protein rad24	3e-07
PRK00080	328	PRK00080, ruvB, Holliday junction DNA helicase Ruv	3e-07
pfam03215	490	pfam03215, Rad17, Rad17 cell cycle checkpoint prot	3e-07
pfam05496	231	pfam05496, RuvB_N, Holliday junction DNA helicase	3e-06
COG2255	332	COG2255, RuvB, Holliday junction resolvasome, heli	3e-06
COG0470	230	COG0470, HolB, ATPase involved in DNA replication	4e-06
PRK07471	365	PRK07471, PRK07471, DNA polymerase III subunit del	4e-06
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	6e-06
PRK04132	846	PRK04132, PRK04132, replication factor C small sub	1e-05
pfam13086	220	pfam13086, AAA_11, AAA domain	8e-05
PRK05564	313	PRK05564, PRK05564, DNA polymerase III subunit del	1e-04
PRK06871	325	PRK06871, PRK06871, DNA polymerase III subunit del	2e-04
PRK05707	328	PRK05707, PRK05707, DNA polymerase III subunit del	3e-04
PRK07764	824	PRK07764, PRK07764, DNA polymerase III subunits ga	3e-04
pfam01078	207	pfam01078, Mg_chelatase, Magnesium chelatase, subu	7e-04
TIGR00635	305	TIGR00635, ruvB, Holliday junction DNA helicase, R	0.001
TIGR00368	499	TIGR00368, TIGR00368, Mg chelatase-related protein	0.002
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	0.002
TIGR02928	365	TIGR02928, TIGR02928, orc1/cdc6 family replication	0.004

>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed

 Score =  300 bits (771), Expect = 1e-99
 Identities = 121/288 (42%), Positives = 172/288 (59%), Gaps = 14/288 (4%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD 93
            WVEKYRP+T+D+++ Q+E+V  LK  +   ++PH LF GPPGTGKT+  +A   +L+G+
Sbjct: 6   IWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGE 65

Query: 94  MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA 153
            +RE  LELNASD+RGI VIR+K+K FA+    G         PFKI+ LDEAD++T  A
Sbjct: 66  DWRENFLELNASDERGIDVIRNKIKEFARTAPVG-------GAPFKIIFLDEADNLTSDA 118

Query: 154 QAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQES 213
           Q ALRRTME  +++TRF L CNY S II P+ SRC+ FRF PL +  +  RL+YI E E 
Sbjct: 119 QQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAENEG 178

Query: 214 VMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLK 273
           +     ALE +   S GDMR+AI  LQ+ A    G+ +  E V ++TG      I ++++
Sbjct: 179 IEITDDALEAIYYVSEGDMRKAINALQAAAAT--GKEVTEEAVYKITGTARPEEIREMIE 236

Query: 274 V---DSFQVLEKYIEDL-ILEAYSATQLFDQFHDIVMLASSLSDKQKA 317
           +     F    + + DL I    S   +  Q H  V  +  + ++ K 
Sbjct: 237 LALNGDFTEAREKLRDLMIDYGLSGEDIIKQIHREV-WSLDIPEELKV 283

Length = 319

>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional

 Score =  241 bits (616), Expect = 2e-76
 Identities = 108/230 (46%), Positives = 149/230 (64%), Gaps = 14/230 (6%)

Query: 33  VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG 92
           +PWVEKYRP  +DD++  ++ VS L+      ++P+ +  GPPGTGKT++++A  H+L G
Sbjct: 1   LPWVEKYRPTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLG 60

Query: 93  DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP--FKIVILDEADSMT 150
             Y+E +LELNASDDRGI V+R+K+K FAQ+  +         PP   KIVILDEADSMT
Sbjct: 61  PNYKEAVLELNASDDRGIDVVRNKIKMFAQKKVT--------LPPGRHKIVILDEADSMT 112

Query: 151 HAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE 210
             AQ ALRRTME  + +TRF L CN  S II+P+ SRC+  RF  L++  +L RL  + E
Sbjct: 113 SGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMKVVE 172

Query: 211 QESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN-EDVLEV 259
            E V    + LE ++ T+ GDMR+A+  LQ+      G G VN E+V +V
Sbjct: 173 AEKVPYVPEGLEAIIFTADGDMRQALNNLQATH---SGFGFVNQENVFKV 219

Length = 319

>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed

 Score =  170 bits (433), Expect = 4e-49
 Identities = 89/298 (29%), Positives = 141/298 (47%), Gaps = 33/298 (11%)

Query: 35  WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM 94
           W EKYRP  ++D++ Q EVV  L + +   +LPH L  GPPG+GKT+ + A   +L+GD 
Sbjct: 5   WTEKYRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDP 64

Query: 95  YRERILELNASD--DRGIQVIR---------DKVKTFAQQTASGFNQ-----------DG 132
           +     E N +D  D+G + +             K         F               
Sbjct: 65  WENNFTEFNVADFFDQGKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSA 124

Query: 133 KPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR 192
                +K ++LD A+++   AQ ALRR ME+ +++ RF +     S +I P+ SRC    
Sbjct: 125 ----DYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIRSRCLPLF 180

Query: 193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV 252
           F+   ++ ++  L+ I E E V  D   LE +   +GGD+R+AI  LQ+ A L  GE I 
Sbjct: 181 FRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAA-LAAGE-IT 238

Query: 253 NEDVLEVTGVIP-KPWIEKLL---KVDSFQVLEKYIEDLIL-EAYSATQLFDQFHDIV 305
            E   E  G +     IE LL   +   F    K ++DL++ E  S  ++ ++   + 
Sbjct: 239 MEAAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLLIDEGLSGGEVLEELLRVA 296

Length = 337

>gnl|CDD|235223 PRK04132, PRK04132, replication factor C small subunit; Provisional

 Score =  166 bits (421), Expect = 2e-44
 Identities = 93/227 (40%), Positives = 130/227 (57%), Gaps = 13/227 (5%)

Query: 80  TSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFK 139
           T+  +A   +LFG+ +R   LELNASD+RGI VIR+KVK FA+    G          FK
Sbjct: 580 TTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIG-------GASFK 632

Query: 140 IVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAEN 199
           I+ LDEAD++T  AQ ALRRTME  + + RF L CNY S II+P+ SRC+ FRF+PL + 
Sbjct: 633 IIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDE 692

Query: 200 TMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEV 259
            +  RL+YI E E +    + L+ ++  + GDMRRAI  LQ+ A L   + I +E+V  V
Sbjct: 693 DIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAALD--DKITDENVFLV 750

Query: 260 TGVIPKPWIEKL----LKVDSFQVLEKYIEDLILEAYSATQLFDQFH 302
                   I ++    LK +  +  EK  E L+ +  S   +  Q H
Sbjct: 751 ASRARPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMH 797

Length = 846

>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional

 Score =  140 bits (355), Expect = 4e-38
 Identities = 75/232 (32%), Positives = 108/232 (46%), Gaps = 27/232 (11%)

Query: 35  WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGP-PGTGKTSTMIAACHQLFGD 93
           W +KYRP TID+ I         K  +    +P+ L + P PGTGKT+   A C+++  +
Sbjct: 11  WEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGAE 70

Query: 94  MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD-SMTHA 152
           +       +N SD R I  +R+++  FA    S  +  G      K++I+DE D      
Sbjct: 71  VLF-----VNGSDCR-IDFVRNRLTRFA----STVSLTGGG----KVIIIDEFDRLGLAD 116

Query: 153 AQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRF-KPLAEN------TMLTRL 205
           AQ  LR  ME  +K+  F +  N  + II+PL SRC    F  P  E        M+ R 
Sbjct: 117 AQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMMKQMIVRC 176

Query: 206 QYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVL 257
           + I E E V  D K L  LV+ +  D RR I  LQ  A      G ++  +L
Sbjct: 177 KGILEAEGVEVDMKVLAALVKKNFPDFRRTINELQRYAS----TGKIDAGIL 224

Length = 316

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

 Score =  139 bits (353), Expect = 2e-36
 Identities = 76/237 (32%), Positives = 113/237 (47%), Gaps = 21/237 (8%)

Query: 32  PVPWVEKYRPKTIDDVIEQQEVVSVLKK----CLSGADLPHFLFYGPPGTGKTSTMIAAC 87
            +PWVEKYRPKT+ DV+  ++    L++     L G      L YGPPG GKTS   A  
Sbjct: 1   MMPWVEKYRPKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALA 60

Query: 88  HQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD 147
           +    D   E ++ELNASD R   VI       A  + S F          K+++LDE D
Sbjct: 61  N----DYGWE-VIELNASDQRTADVIERVAGE-AATSGSLFGARR------KLILLDEVD 108

Query: 148 SMTHAAQAALRRTMEKETKSTRFCLIC---NYVSCIIQPLTSRCSKFRFKPLAENTMLTR 204
            +         R + +  K  +  +I    +     ++ L + C    FK L+  +++  
Sbjct: 109 GIHGNEDRGGARAILELIKKAKQPIILTANDPYDPSLRELRNACLMIEFKRLSTRSIVPV 168

Query: 205 LQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG 261
           L+ IC +E + CD +AL+ + E SGGD+R AI  LQ+ A   G   +  EDV  +  
Sbjct: 169 LKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAE--GYGKLTLEDVKTLGR 223

Length = 482

>gnl|CDD|237867 PRK14953, PRK14953, DNA polymerase III subunits gamma and tau; Provisional

 Score =  118 bits (296), Expect = 8e-29
 Identities = 85/305 (27%), Positives = 136/305 (44%), Gaps = 51/305 (16%)

Query: 33  VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTM-IAA---- 86
           +P+  KYRPK   +VI Q+ VV +LK  +    + H ++F GP GTGKT+   I A    
Sbjct: 4   IPFARKYRPKFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLN 63

Query: 87  ---------CHQL----------FGDMYRERILELNASDDRGI---QVIRDKVKTFAQQT 124
                    C +           F D+      E++A+ +RGI   + +RD V     + 
Sbjct: 64  CLNPQEGEPCGKCENCVEIDKGSFPDLI-----EIDAASNRGIDDIRALRDAVSYTPIK- 117

Query: 125 ASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPL 184
                  GK    +K+ I+DEA  +T  A  AL +T+E+    T F L       I   +
Sbjct: 118 -------GK----YKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTI 166

Query: 185 TSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR 244
            SRC +F F    +  +   L+ IC +E +  + KAL+ L + S G MR A + L   + 
Sbjct: 167 LSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEGGMRDAASLLDQAST 226

Query: 245 LKGGEGIVNEDVLE-VTGVIPKPWIEK---LLKVDSFQVLEKYIEDLILEAYSATQLFDQ 300
              GEG V   V+E   G++ +  + K   LL         K++  L  + Y+  + + Q
Sbjct: 227 Y--GEGKVTIKVVEEFLGIVSQESVRKFLNLLLESDVDEAIKFLRTLEEKGYNLNKFWKQ 284

Query: 301 FHDIV 305
             + +
Sbjct: 285 LEEEI 289

Length = 486

>gnl|CDD|233847 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau

 Score =  115 bits (290), Expect = 1e-28
 Identities = 91/366 (24%), Positives = 161/366 (43%), Gaps = 77/366 (21%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST--MIA--------- 85
           KYRP+T +DVI Q+ +V  LK  +    + H +LF GP GTGKTS   + A         
Sbjct: 7   KYRPQTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGP 66

Query: 86  ---------ACHQLFGDMYRERILELNASDDRG---IQVIRDKVKTFAQQTASGFNQDGK 133
                    +C ++      + ++E++A+ + G   I+ I D VK             GK
Sbjct: 67  DGEPCNECESCKEINSGSSLD-VIEIDAASNNGVDDIREILDNVKYAPSS--------GK 117

Query: 134 PCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLT--SRCSKF 191
               +K+ I+DE   ++ +A  AL +T+E+  +   F L       I  P T  SRC +F
Sbjct: 118 ----YKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKI--PATILSRCQRF 171

Query: 192 RFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI 251
            FK +    ++ RL+ I ++E +  + +ALE +   + G +R A++ L        G  I
Sbjct: 172 DFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLLDQLISFGNGN-I 230

Query: 252 VNEDVLEVTGVIPKPWIEKLLK-------VDSFQVLEKYIE-----------------DL 287
             EDV E+ G++    + +LL+        ++ ++L++ +E                 DL
Sbjct: 231 TYEDVNELLGLVDDEKLIELLEAILNKDTAEALKILDEILESGVDPEKFLEDLIEILRDL 290

Query: 288 ILEAYSATQLFDQFHDIVMLASSLSDK--QKALFKALETLVETSGGDMRRA--------I 337
           +L   + + L             L+ K   + L + L+ L+E +  D+R +        +
Sbjct: 291 LLIKKTPSNLLAVLESEQEFLKELALKLSLEFLLRLLDILLE-ALKDLRFSNDPRIWLEM 349

Query: 338 TCLQSC 343
           T L+  
Sbjct: 350 TLLRLL 355

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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 355

>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau; Provisional

 Score =  110 bits (277), Expect = 3e-26
 Identities = 72/289 (24%), Positives = 125/289 (43%), Gaps = 41/289 (14%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST-------------- 82
           KYRPKT  +V+ Q  V  ++   L    + H ++F GP GTGKT+               
Sbjct: 7   KYRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRK 66

Query: 83  ------MIAACHQL----FGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG 132
                    AC  +    F D     ++EL+A+ +RGI  IR        +   G     
Sbjct: 67  GVEPCNECRACRSIDEGTFMD-----VIELDAASNRGIDEIRKIRDAVGYRPMEG----- 116

Query: 133 KPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR 192
                +K+ I+DE   +T  A  AL +T+E+      F L    +  +   + SRC    
Sbjct: 117 ----KYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVIE 172

Query: 193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV 252
           F+ +++  ++ RLQ + E E +  D +AL  + + + G +R A+T L+   +   G+ I 
Sbjct: 173 FRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSEGK-IT 231

Query: 253 NEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQF 301
            E V E  G+IP   +   +    F    K +  ++ + Y + + ++  
Sbjct: 232 LETVHEALGLIPIEVVRDYINA-IFNGDVKRVFTVLDDVYYSGKDYEVL 279

Length = 472

>gnl|CDD|225369 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

 Score =  102 bits (256), Expect = 2e-23
 Identities = 78/325 (24%), Positives = 135/325 (41%), Gaps = 48/325 (14%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST--MIAACH------ 88
           KYRPKT DDV+ Q+ VV  L   L    + H +LF GP G GKT+   ++A         
Sbjct: 9   KYRPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGP 68

Query: 89  --QLFGDMYRER---------ILELNASDDRGIQVIR---DKVKTFAQQTASGFNQDGKP 134
             +  G     +         ++E++A+ + G+  IR   +KV        S        
Sbjct: 69  TAEPCGKCISCKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNY----APSEGR----- 119

Query: 135 CPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLT--SRCSKFR 192
              +K+ I+DE   ++  A  AL +T+E+     +F L       I  P T  SRC +F 
Sbjct: 120 ---YKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKI--PNTILSRCQRFD 174

Query: 193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV 252
           FK L    +   L  I ++E +  +  AL  +   + G +R A++ L   A   G   I 
Sbjct: 175 FKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSLL-DQAIAFGEGEIT 233

Query: 253 NEDVLEVTGVIPKPWIEKLLKV-------DSFQVLEKYIEDLILEAYSATQLFDQFHD-I 304
            E V ++ G+     +  LL+        ++ +++ + IE+          L +   D +
Sbjct: 234 LESVRDMLGLTDIEKLLSLLEAILKGDAKEALRLINELIEEGKDPEAFLEDLLNFLRDLL 293

Query: 305 VMLASSLSDKQKALFKALETLVETS 329
           +   +  ++ Q    +  E   E +
Sbjct: 294 LFKQTVPNELQLNTTEIEERTKELA 318

Length = 515

>gnl|CDD|235943 PRK07133, PRK07133, DNA polymerase III subunits gamma and tau; Validated

 Score = 98.0 bits (244), Expect = 1e-21
 Identities = 82/305 (26%), Positives = 147/305 (48%), Gaps = 44/305 (14%)

Query: 29  RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST----- 82
           R K      KYRPKT DD++ Q  +V  LK  +    + H +LF GP GTGKTS      
Sbjct: 2   RMKYKALYRKYRPKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFA 61

Query: 83  ----------MIAACHQLFGDMYRE-RILELNASDDRGIQVIR---DKVKTFAQQTASGF 128
                     ++  C +   ++     I+E++A+ + G+  IR   + VK    Q+    
Sbjct: 62  NALNCSHKTDLLEPCQECIENVNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQS---- 117

Query: 129 NQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLT--S 186
                    +KI I+DE   ++ +A  AL +T+E+  K   F L    V  I  PLT  S
Sbjct: 118 --------KYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKI--PLTILS 167

Query: 187 RCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK 246
           R  +F F+ ++E+ +++RL++I E+E++  +  AL+ + + S G +R A++  +  +   
Sbjct: 168 RVQRFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFG 227

Query: 247 GGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVM 306
             + I  ++V E+ G++    +  LL +   + +++ +  L        Q+ +Q  D  +
Sbjct: 228 NNK-ITLKNVEELFGLVSNENLINLLNLLYSKDIKEVLNIL-------NQIKEQGIDPEL 279

Query: 307 LASSL 311
           L  SL
Sbjct: 280 LLISL 284

Length = 725

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

 Score = 94.4 bits (236), Expect = 4e-21
 Identities = 62/233 (26%), Positives = 103/233 (44%), Gaps = 34/233 (14%)

Query: 37  EKYRPKTIDDVIEQQEVV---SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD 93
           E+ RPKT+D+V+ Q+ ++     L++ +    L   + +GPPGTGKT+  +A   ++   
Sbjct: 4   ERMRPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTT--LA---RIIAG 58

Query: 94  MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA 153
                   L+A    G++ +R+ ++  A+Q  S   +         I+ +DE      A 
Sbjct: 59  ATDAPFEALSAVTS-GVKDLREVIEE-ARQRRSAGRR--------TILFIDEIHRFNKAQ 108

Query: 154 QAALRRTMEKETKSTRFCLIC----N-YVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYI 208
           Q AL   +E  T      LI     N     +   L SR   F  KPL+E  +   L+  
Sbjct: 109 QDALLPHVEDGT----ITLIGATTENPSFE-VNPALLSRAQVFELKPLSEEDIEQLLKRA 163

Query: 209 CEQES---VMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLE 258
            E +    V  D +AL+ L   + GD RRA+  L+  A        +  ++LE
Sbjct: 164 LEDKERGLVELDDEALDALARLANGDARRALNLLELAALG---VDSITLELLE 213

Length = 413

>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated

 Score = 93.0 bits (232), Expect = 3e-20
 Identities = 77/301 (25%), Positives = 133/301 (44%), Gaps = 68/301 (22%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTM-IAA----CHQLF 91
           K+RP+T +DV+ Q+ +   LK  +    + H +LF GP GTGKTS   I A    C    
Sbjct: 9   KWRPQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPP 68

Query: 92  G-------DMYRE-------RILELNASDDRG---IQVIRDKVKTFAQQTASGFNQDGKP 134
                   ++ +         ++E++A+ + G   I+ IRDKVK +A   A         
Sbjct: 69  DGEPCNECEICKAITNGSLMDVIEIDAASNNGVDEIRDIRDKVK-YAPSEA--------- 118

Query: 135 CPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL-------ICNYVSCIIQPLT-- 185
              +K+ I+DE   ++  A  AL +T+E+      F L       I         P T  
Sbjct: 119 --KYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKI---------PATIL 167

Query: 186 SRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL 245
           SRC +F FK ++   ++ RL+YI ++E +  + +AL  +   + G MR A++ L      
Sbjct: 168 SRCQRFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEGGMRDALSILDQAISF 227

Query: 246 KGGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIV 305
             G+ +  ED LEVTG +            S + L+  ++ ++       +      +++
Sbjct: 228 GDGK-VTYEDALEVTGSV------------SQEALDDLVDAIV--EGDVAKALKILEELL 272

Query: 306 M 306
            
Sbjct: 273 D 273

Length = 559

>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 = 85.7 bits (212), Expect = 6e-20
 Identities = 41/157 (26%), Positives = 66/157 (42%), Gaps = 15/157 (9%)

Query: 48  IEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD 107
           + Q+E +  L++ L      + L YGPPGTGKT+   A  ++LF        L LNASD 
Sbjct: 1   VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDL 58

Query: 108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTME----- 162
               V+ +    F  +      +  KP     ++ +DE DS++  AQ AL R +E     
Sbjct: 59  LEGLVVAELFGHFLVRLLFELAEKAKPG----VLFIDEIDSLSRGAQNALLRVLETLNDL 114

Query: 163 -KETKSTRFCLICNYVSC--IIQPLTSRC-SKFRFKP 195
             + ++ R     N      + + L  R   +     
Sbjct: 115 RIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 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|184925 PRK14961, PRK14961, DNA polymerase III subunits gamma and tau; Provisional

 Score = 82.9 bits (205), Expect = 2e-17
 Identities = 67/285 (23%), Positives = 129/285 (45%), Gaps = 48/285 (16%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST--MIAA-------- 86
           K+RP+   D+I Q+ +V+ +   LS   + H +L  G  G GKT+   ++A         
Sbjct: 9   KWRPQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGI 68

Query: 87  ----CHQ----------LFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG 132
               C +          L  D+      E++A+    ++ +R+ +       +       
Sbjct: 69  TSNPCRKCIICKEIEKGLCLDLI-----EIDAASRTKVEEMREILDNIYYSPSKS----- 118

Query: 133 KPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR 192
                FK+ ++DE   ++  +  AL +T+E+  +  +F L    V  I + + SRC +F+
Sbjct: 119 ----RFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFK 174

Query: 193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV 252
            K ++E  +   L+YI  +ES+  D  AL+ +   + G MR A+  L+    L  G+G +
Sbjct: 175 LKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLEHAINL--GKGNI 232

Query: 253 NE-DVLEVTGVIPKPWI----EKLLKVDSFQVLE--KYIEDLILE 290
           N  +V ++ G++ +       + LLK DS + +     I  + +E
Sbjct: 233 NIKNVTDMLGLLNEKQSFLLTDALLKKDSKKTMLLLNKISSIGIE 277

Length = 363

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

 Score = 83.4 bits (207), Expect = 3e-17
 Identities = 62/245 (25%), Positives = 107/245 (43%), Gaps = 38/245 (15%)

Query: 34  PWVEKYRPKTIDDVIEQQEVV---SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL 90
           P  E+ RPK++D+V+ Q+ ++     L++ +    L   + +GPPGTGKT+  +A   +L
Sbjct: 13  PLAERLRPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTT--LA---RL 67

Query: 91  FGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT 150
                      L+A    G++ +R+ ++  A++         +      I+ LDE     
Sbjct: 68  IAGTTNAAFEALSAVTS-GVKDLREIIEE-ARKN---RLLGRRT-----ILFLDEIHRFN 117

Query: 151 HAAQAALRRTMEKETKSTRFCLIC------NYVSCIIQPLTSRCSKFRFKPLAENTMLTR 204
            A Q AL   +E  T      LI       ++   +   L SR   F  KPL+   +   
Sbjct: 118 KAQQDALLPHVENGT----IILIGATTENPSFE--LNPALLSRARVFELKPLSSEDIKKL 171

Query: 205 LQYICEQES-------VMCDFKALETLVETSGGDMRRAITCLQSCARL-KGGEGIVNEDV 256
           L+     E        ++ D +AL+ LV  S GD RRA+  L+  A   +  E ++ E +
Sbjct: 172 LKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELL 231

Query: 257 LEVTG 261
            E+  
Sbjct: 232 EEILQ 236

Length = 436

>gnl|CDD|237871 PRK14965, PRK14965, DNA polymerase III subunits gamma and tau; Provisional

 Score = 83.3 bits (206), Expect = 5e-17
 Identities = 83/344 (24%), Positives = 143/344 (41%), Gaps = 57/344 (16%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTM-IAA----CHQLF 91
           KYRP+T  D+  Q+ V   L+  +    + H FLF G  G GKTST  I A    C Q  
Sbjct: 9   KYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQ-- 66

Query: 92  GDMYRE-----------------RILELNASDDRG---IQVIRDKVKTFAQQTASGFNQD 131
             +  E                  + E++ + + G   I+ +R+ VK    ++       
Sbjct: 67  -GLTAEPCNVCPPCVEITEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSR------ 119

Query: 132 GKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKF 191
                 +KI I+DE   ++  A  AL +T+E+     +F         +   + SRC +F
Sbjct: 120 ------YKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSRCQRF 173

Query: 192 RFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI 251
            F+ +    ++ RL+YI +QE +     AL  +     G MR +++ L        G+ +
Sbjct: 174 DFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDGSMRDSLSTLDQ-VLAFCGDAV 232

Query: 252 VNEDVLEVTGVIPKPWI----EKLLKVDSFQVLEKYIEDLILEAYSATQ----LFDQFHD 303
            ++DV E+ GV+ +  +      +   D+  +LE  +E +    Y+  Q    L D   +
Sbjct: 233 GDDDVAELLGVVDRRLLLDISAAVFGRDTRALLEI-VERVDEFGYNMRQFCQELIDHLRN 291

Query: 304 IVML-----ASSLSDKQKALFKALETLVET-SGGDMRRAITCLQ 341
           +V+L        L D  +A    L          D++R +T L 
Sbjct: 292 LVVLRAVGEPGDLLDLSEAELAELRAQAAAADAADLQRHLTLLL 335

Length = 576

>gnl|CDD|184927 PRK14963, PRK14963, DNA polymerase III subunits gamma and tau; Provisional

 Score = 81.4 bits (201), Expect = 1e-16
 Identities = 60/223 (26%), Positives = 97/223 (43%), Gaps = 28/223 (12%)

Query: 37  EKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST-----MIAACH-- 88
           ++ RP T D+V+ Q+ V  VL   L    L H +LF GP G GKT+T     M   C   
Sbjct: 6   QRARPITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGE 65

Query: 89  -----------QLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
                                +LE++A+ +  ++ +RD  +        G          
Sbjct: 66  DPKPCGECESCLAVRRGAHPDVLEIDAASNNSVEDVRDLREKVLLAPLRG---------G 116

Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
            K+ ILDEA  M+ +A  AL +T+E+  +   F L       +   + SR   FRF+ L 
Sbjct: 117 RKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLT 176

Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ 240
           E  +  +L+ + E E    + +AL+ +   + G MR A + L+
Sbjct: 177 EEEIAGKLRRLLEAEGREAEPEALQLVARLADGAMRDAESLLE 219

Length = 504

>gnl|CDD|184934 PRK14970, PRK14970, DNA polymerase III subunits gamma and tau; Provisional

 Score = 80.7 bits (199), Expect = 1e-16
 Identities = 80/309 (25%), Positives = 128/309 (41%), Gaps = 39/309 (12%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR 96
           KYRP+T DDV+ Q  + + L   +    L    LF GP G GKT+     C ++      
Sbjct: 10  KYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTT-----CARILARKIN 64

Query: 97  ER------------ILELNASDDRGIQVIRDKVKT--FAQQTASGFNQDGKPCPPFKIVI 142
           +             I EL+A+ +  +  IR+ +       QT       GK    +KI I
Sbjct: 65  QPGYDDPNEDFSFNIFELDAASNNSVDDIRNLIDQVRIPPQT-------GK----YKIYI 113

Query: 143 LDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTML 202
           +DE   ++ AA  A  +T+E+      F L       II  + SRC  F FK +    + 
Sbjct: 114 IDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKDIK 173

Query: 203 TRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGV 262
             L  I  +E +  +  AL  + + + G +R A++          G+ I  + V E   +
Sbjct: 174 EHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSIFDRVVTFC-GKNITRQAVTENLNI 232

Query: 263 IPKPWIEKLLKVDSFQVLEKYIEDLILEAYS--ATQLFDQFHDIVMLASSLSDKQKALFK 320
           +     +  + V    +LE  I +L+L A++    + FD  H I  LAS   D   +   
Sbjct: 233 LD---YDTYINVTDL-ILENKIPELLL-AFNEILRKGFDGHHFIAGLASHFRDLMVSKTP 287

Query: 321 ALETLVETS 329
           A   L+E  
Sbjct: 288 ATIALLEVG 296

Length = 367

>gnl|CDD|180643 PRK06645, PRK06645, DNA polymerase III subunits gamma and tau; Validated

 Score = 81.1 bits (200), Expect = 2e-16
 Identities = 71/302 (23%), Positives = 127/302 (42%), Gaps = 44/302 (14%)

Query: 30  NKPVPWVEKYRPKTIDDVIEQQEVVSVL-----KKCLSGADLPHFLFYGPPGTGKT---- 80
           N+ +P+  KYRP    ++  Q+ +V VL        L+G     +L  G  G GKT    
Sbjct: 6   NQYIPFARKYRPSNFAELQGQEVLVKVLSYTILNDRLAGG----YLLTGIRGVGKTTSAR 61

Query: 81  --------------STMIAACHQL-----FGDMYRERILELNASDDRGIQVIRDKVKTFA 121
                         +T I  C Q      F +     I+E++A+    +  IR  +++  
Sbjct: 62  IIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAE 121

Query: 122 QQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCII 181
            +   G           KI I+DE   ++  A  AL +T+E+      F      V  I 
Sbjct: 122 YKPLQG---------KHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIP 172

Query: 182 QPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQS 241
             + SRC ++  + L+   +   L+YI +QE++  D +AL  +   S G  R A++ L  
Sbjct: 173 ATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQ 232

Query: 242 CARL--KGGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFD 299
            A +  K    I  + + ++ G++    I + ++    +  EK I +LI + Y ++   +
Sbjct: 233 AASMSAKSDNIISPQVINQMLGLVDSSVIIEFVEYIIHRETEKAI-NLINKLYGSSVNLE 291

Query: 300 QF 301
            F
Sbjct: 292 IF 293

Length = 507

>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau; Provisional

 Score = 78.7 bits (194), Expect = 1e-15
 Identities = 61/236 (25%), Positives = 102/236 (43%), Gaps = 36/236 (15%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST--MIAACHQLFGDM 94
           K+R +T  +++ Q+ VV  L+  ++   + H +LF GP G GKTST  ++A       + 
Sbjct: 9   KWRSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTND 68

Query: 95  YRER------------------ILELNASDDRG---IQVIRDKVKTFAQQTASGFNQDGK 133
            + R                  ++E++A+        + I ++V+ F    A        
Sbjct: 69  PKGRPCGTCEMCRAIAEGSAVDVIEMDAASHTSVDDAREIIERVQ-FRPALAR------- 120

Query: 134 PCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRF 193
               +K+ I+DE   ++ AA  AL +T+E+      F L    V  +   + SRC +F F
Sbjct: 121 ----YKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILSRCQRFDF 176

Query: 194 KPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGE 249
              +   M   L+ I   E +  +  ALE +   + G MR A   LQ  A   GGE
Sbjct: 177 HRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATTYGGE 232

Length = 585

>gnl|CDD|223546 COG0470, HolB, ATPase involved in DNA replication [DNA replication, recombination, and repair]

 Score = 74.3 bits (182), Expect = 4e-15
 Identities = 48/149 (32%), Positives = 70/149 (46%), Gaps = 21/149 (14%)

Query: 165 TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETL 224
            K+TRF LI N  S I+  + SRC + RFKP       +RL+ I   E      + LE +
Sbjct: 42  PKNTRFILITNDPSKILPTIRSRCQRIRFKP------PSRLEAIAWLED-----QGLEEI 90

Query: 225 VETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPW----IEKLLKV---DSF 277
              + GD R+AI  LQ+ A L+ GE  + E +L     +P+        +LLK+      
Sbjct: 91  AAVAEGDARKAINPLQALAALEIGEESIYEALLL---ALPESLAQLAALELLKLAENKFL 147

Query: 278 QVLEKYIEDLILEAYSATQLFDQFHDIVM 306
           + LEK    L+LE      L DQ    ++
Sbjct: 148 EALEKLWLLLLLEGLLGEDLLDQLQRELL 176

Length = 230

>gnl|CDD|236267 PRK08451, PRK08451, DNA polymerase III subunits gamma and tau; Validated

 Score = 75.5 bits (186), Expect = 1e-14
 Identities = 76/234 (32%), Positives = 109/234 (46%), Gaps = 53/234 (22%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTM-IAA----CHQLF 91
           KYRPK  D++I Q+ V   L   L    L H +LF G  G+GKTS+  I A    C Q  
Sbjct: 7   KYRPKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGP 66

Query: 92  GDMYRER--------------ILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
                +               I+E++A+ +RGI  IR+ +    +QT        K  P 
Sbjct: 67  SSTPCDTCIQCQSALENRHIDIIEMDAASNRGIDDIRELI----EQT--------KYKPS 114

Query: 138 ---FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQ-------PLT-- 185
              FKI I+DE   +T  A  AL +T+E E  S        YV  I+        P T  
Sbjct: 115 MARFKIFIIDEVHMLTKEAFNALLKTLE-EPPS--------YVKFILATTDPLKLPATIL 165

Query: 186 SRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL 239
           SR   FRFK + +N++++ L+ I E+E V  + +ALE L  +  G +R  +T L
Sbjct: 166 SRTQHFRFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGNGSLRDTLTLL 219

Length = 535

>gnl|CDD|236333 PRK08691, PRK08691, DNA polymerase III subunits gamma and tau; Validated

 Score = 75.1 bits (184), Expect = 2e-14
 Identities = 65/256 (25%), Positives = 120/256 (46%), Gaps = 32/256 (12%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST-------------- 82
           K+RPKT  D++ Q+ VV  L+  L    L H +L  G  G GKT+               
Sbjct: 9   KWRPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQ 68

Query: 83  ------MIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCP 136
                 +  +C Q+    Y + +LE++A+ + GI  IR+ ++  AQ   +     GK   
Sbjct: 69  HGEPCGVCQSCTQIDAGRYVD-LLEIDAASNTGIDNIREVLEN-AQYAPTA----GK--- 119

Query: 137 PFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPL 196
            +K+ I+DE   ++ +A  A+ +T+E+  +  +F L       +   + SRC +F  + +
Sbjct: 120 -YKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFVLRNM 178

Query: 197 AENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDV 256
               +   L ++ + E +  +  AL+ L   + G MR A++ L     L  G+ +   DV
Sbjct: 179 TAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIALGSGK-VAENDV 237

Query: 257 LEVTGVIPKPWIEKLL 272
            ++ G + K ++ +LL
Sbjct: 238 RQMIGAVDKQYLYELL 253

Length = 709

>gnl|CDD|180523 PRK06305, PRK06305, DNA polymerase III subunits gamma and tau; Validated

 Score = 74.0 bits (182), Expect = 3e-14
 Identities = 63/221 (28%), Positives = 100/221 (45%), Gaps = 34/221 (15%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS-TMIAA--------- 86
           KYRP+T  +++ Q  VV+VLK  L      H +LF G  GTGKT+   I A         
Sbjct: 10  KYRPQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPT 69

Query: 87  -----CHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKP 134
                C+Q      +E        +LE++ +  RGI+ IR   +T     +         
Sbjct: 70  EDQEPCNQCA--SCKEISSGTSLDVLEIDGASHRGIEDIRQINETVLFTPSKS------- 120

Query: 135 CPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFK 194
              +KI I+DE   +T  A  +L +T+E+  +  +F L    +  I   + SRC K   K
Sbjct: 121 --RYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSRCQKMHLK 178

Query: 195 PLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRA 235
            + E T++ +L  I +QE +    +AL  +   + G +R A
Sbjct: 179 RIPEETIIDKLALIAKQEGIETSREALLPIARAAQGSLRDA 219

Length = 451

>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed

 Score = 71.1 bits (175), Expect = 1e-13
 Identities = 36/126 (28%), Positives = 63/126 (50%), Gaps = 7/126 (5%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---D 376
            ALE +   S GDMR+AI  LQ+ A    G+ +  E V ++TG      I +++++    
Sbjct: 184 DALEAIYYVSEGDMRKAINALQAAAAT--GKEVTEEAVYKITGTARPEEIREMIELALNG 241

Query: 377 SFQVLEKYIEDL-ILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGA 435
            F    + + DL I    S   +  Q H  V S   + ++ K  +++ + E + R+ +GA
Sbjct: 242 DFTEAREKLRDLMIDYGLSGEDIIKQIHREVWS-LDIPEELKVELIDAIGEADFRITEGA 300

Query: 436 SEYIQI 441
           +E IQ+
Sbjct: 301 NERIQL 306

Length = 319

>gnl|CDD|237873 PRK14969, PRK14969, DNA polymerase III subunits gamma and tau; Provisional

 Score = 71.3 bits (175), Expect = 3e-13
 Identities = 72/266 (27%), Positives = 125/266 (46%), Gaps = 52/266 (19%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST-------------- 82
           K+RPK+  +++ Q+ VV  L   L    L H +LF G  G GKT+               
Sbjct: 9   KWRPKSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGV 68

Query: 83  ------MIAACHQL----FGDMYRERILELNASDDRGIQVIRDKVKT--FAQQTASGFNQ 130
                 + +AC ++    F D+     +E++A+ +  +  +R+ +    +A         
Sbjct: 69  TATPCGVCSACLEIDSGRFVDL-----IEVDAASNTQVDAMRELLDNAQYAPTRGR---- 119

Query: 131 DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLT--SRC 188
                  FK+ I+DE   ++ +A  A+ +T+E+  +  +F L       I  P+T  SRC
Sbjct: 120 -------FKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKI--PVTVLSRC 170

Query: 189 SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL-QSCARLKG 247
            +F  K +    +++ LQ+I EQE++  D  AL+ L   + G MR A++ L Q+ A    
Sbjct: 171 LQFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLARAAAGSMRDALSLLDQAIAY--- 227

Query: 248 GEGIVNE-DVLEVTGVIPKPWIEKLL 272
           G G VNE +V  + G I + ++  LL
Sbjct: 228 GGGTVNESEVRAMLGAIDQDYLFALL 253

Length = 527

>gnl|CDD|233087 TIGR00678, holB, DNA polymerase III, delta' subunit

 Score = 66.9 bits (164), Expect = 5e-13
 Identities = 46/171 (26%), Positives = 70/171 (40%), Gaps = 30/171 (17%)

Query: 57  LKKCLSGADLPH-FLFYGPPGTGKTST---MIAA--CHQLFGDMYRE------RILELNA 104
           LK+ L    L H +LF GP G GK      +  A  C Q  G            I   N 
Sbjct: 4   LKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNH 63

Query: 105 SDDR---------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQA 155
            D            +  +R+ +  F  +T     Q+       ++VI+++A+ M  AA  
Sbjct: 64  PDLHRLEPEGQSIKVDQVRE-LVEFLSRTP----QES----GRRVVIIEDAERMNEAAAN 114

Query: 156 ALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQ 206
           AL +T+E+   +T F LI      ++  + SRC    F PL+E  +L  L 
Sbjct: 115 ALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLI 165

This model describes the N-terminal half of the delta' subunit of DNA polymerase III. Delta' is homologous to the gamma and tau subunits, which form an outgroup for phylogenetic comparison. The gamma/tau branch of the tree is much more tighly conserved than the delta' branch, and some members of that branch score more highly against this model than some proteins classisified as delta'. The noise cutoff is set to detect weakly scoring delta' subunits rather than to exclude gamma/tau subunits. 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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 188

>gnl|CDD|235223 PRK04132, PRK04132, replication factor C small subunit; Provisional

 Score = 69.5 bits (170), Expect = 1e-12
 Identities = 25/49 (51%), Positives = 33/49 (67%)

Query: 34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTST 82
          PWVEKYRP+ +DD++ Q+ +V  LK  +    +PH LF GPPG GK  T
Sbjct: 8  PWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKCLT 56

Length = 846

>gnl|CDD|237870 PRK14964, PRK14964, DNA polymerase III subunits gamma and tau; Provisional

 Score = 69.0 bits (169), Expect = 1e-12
 Identities = 65/284 (22%), Positives = 125/284 (44%), Gaps = 43/284 (15%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST--MIAAC-HQLFG- 92
           KYRP +  D++ Q  +V +L+   +   +P   L  G  G GKT+   +I+ C +   G 
Sbjct: 6   KYRPSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGP 65

Query: 93  ---------------DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
                          +     ++E++A+ +  +  I+  ++       S           
Sbjct: 66  TSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDDIKVILENSCYLPISS---------K 116

Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
           FK+ I+DE   ++++A  AL +T+E+     +F L    V  I   + SRC +F  + + 
Sbjct: 117 FKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQRFDLQKIP 176

Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVL 257
            + ++  L  I ++E++  D ++L+ + E S G MR A+  L+  A       I + + +
Sbjct: 177 TDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLEQAA-------IYSNNKI 229

Query: 258 EVTGVIPKPWIEKLLKVDSFQVLEKYIEDLIL-EAYSATQLFDQ 300
               V        LL      +LE  +E ++L +A SA  +F +
Sbjct: 230 SEKSV------RDLLGCVDKHILEDLVEAILLGDAQSALNVFRE 267

Length = 491

>gnl|CDD|235638 PRK05896, PRK05896, DNA polymerase III subunits gamma and tau; Validated

 Score = 68.7 bits (168), Expect = 2e-12
 Identities = 70/289 (24%), Positives = 124/289 (42%), Gaps = 39/289 (13%)

Query: 37  EKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS--TMIAA------- 86
            KYRP     +I Q+ +  +L   +    L H ++F GP G GKTS   + A        
Sbjct: 8   RKYRPHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNP 67

Query: 87  -----CHQ-----LFGDMYRERILELNASDDRGIQVIRDKVKT--FAQQTASGFNQDGKP 134
                C+               I+EL+A+ + G+  IR+ +    +   T          
Sbjct: 68  KDGDCCNSCSVCESINTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFK-------- 119

Query: 135 CPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLT--SRCSKFR 192
              +K+ I+DEA  ++ +A  AL +T+E+  K   F         I  PLT  SRC ++ 
Sbjct: 120 ---YKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKI--PLTIISRCQRYN 174

Query: 193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV 252
           FK L  + +   L+ I ++E +  +  A++ + + + G +R  ++ L   +  K  E I 
Sbjct: 175 FKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSILDQLSTFKNSE-ID 233

Query: 253 NEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQF 301
            ED+ +  G++       L+++     +E+    LI E  S    F+ F
Sbjct: 234 IEDINKTFGLVDNNKKINLIELIQKNDIEELRN-LINELESKGINFEAF 281

Length = 605

>gnl|CDD|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau; Provisional

 Score = 67.5 bits (165), Expect = 5e-12
 Identities = 63/235 (26%), Positives = 105/235 (44%), Gaps = 36/235 (15%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
           KYRP T + V+ Q+ + + LK  ++   L H +LF GP G GKT+             + 
Sbjct: 10  KYRPSTFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLT 69

Query: 85  A---ACHQL-----FGDMYRERILELNASDDRGIQVIR---DKVKTFAQQTASGFNQDGK 133
           A   AC++      F +     I EL+A+ +  +  IR   ++V+   Q         GK
Sbjct: 70  ADGEACNECESCVAFNEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQI--------GK 121

Query: 134 PCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRF 193
               +KI I+DE   ++ AA  A  +T+E+      F L       I+  + SRC  F F
Sbjct: 122 ----YKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDF 177

Query: 194 KPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGG 248
             +    ++  LQY+  +E +  + +AL  + + + G MR A++         GG
Sbjct: 178 NRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSIFDQVVSFTGG 232

Length = 614

>gnl|CDD|203973 pfam08542, Rep_fac_C, Replication factor C C-terminal domain

 Score = 61.0 bits (149), Expect = 7e-12
 Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 4/81 (4%)

Query: 369 IEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLA 425
           I+++L       F    + + +L++E  SA  +  Q H++++    + D  K  I+++LA
Sbjct: 8   IKEILDSILKGDFDEARETLYELLVEGISAEDILKQLHEVLIR-LDIPDSLKLEIIKELA 66

Query: 426 ECNARLQDGASEYIQILDLGS 446
           E   RL DGA E IQ+  L +
Sbjct: 67  EIEHRLSDGAKEIIQLEALIA 87

This is the C-terminal domain of RFC (replication factor-C) protein of the clamp loader complex which binds to the DNA sliding clamp (proliferating cell nuclear antigen, PCNA). The five modules of RFC assemble into a right-handed spiral, which results in only three of the five RFC subunits (RFC-A, RFC-B and RFC-C) making contact with PCNA, leaving a wedge-shaped gap between RFC-E and the PCNA clamp-loader complex. The C-terminal is vital for the correct orientation of RFC-E with respect to RFC-A. Length = 89

>gnl|CDD|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau; Provisional

 Score = 66.5 bits (162), Expect = 1e-11
 Identities = 57/220 (25%), Positives = 97/220 (44%), Gaps = 37/220 (16%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTM------------- 83
           KYRP+   DVI Q   +  L+  L    + H ++F+GP G GKT+               
Sbjct: 11  KYRPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPI 70

Query: 84  -------IAACHQLFGDMYRERILELNASDDRGIQVIR---DKVKTFAQQTASGFNQDGK 133
                    +C ++   +  + +LE++A+ +RGI+ IR   D VK         F   G 
Sbjct: 71  GNEPCNECTSCLEITKGISSD-VLEIDAASNRGIENIRELRDNVK---------FAPMGG 120

Query: 134 PCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRF 193
               +K+ I+DE   +T  +  AL +T+E+      F L       I + + SRC  F F
Sbjct: 121 K---YKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFIF 177

Query: 194 KPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMR 233
           K +  + +    + +C+ E+V  D + L  + +   G +R
Sbjct: 178 KKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGSVR 217

Length = 484

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

 Score = 61.8 bits (151), Expect = 1e-11
 Identities = 28/143 (19%), Positives = 49/143 (34%), Gaps = 29/143 (20%)

Query: 70  LFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK-VKTFAQQTASGF 128
           L YGPPGTGKT+        +  ++     +E++ S+      +  K V    ++    F
Sbjct: 2   LLYGPPGTGKTTL----AKAVAKELGA-PFIEISGSE------LVSKYVGESEKRLRELF 50

Query: 129 NQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTMEKETKSTR---FCLIC 174
               K  P   ++ +DE D++  +               L   ++  T S          
Sbjct: 51  EAAKKLAPC--VIFIDEIDALAGSRGSGGDSESRRVVNQLLTELDGFTSSLSKVIVIAAT 108

Query: 175 NYVSCIIQPL-TSRCSKFRFKPL 196
           N    +   L   R  +    PL
Sbjct: 109 NRPDKLDPALLRGRFDRIIEFPL 131

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

>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau; Provisional

 Score = 66.3 bits (162), Expect = 1e-11
 Identities = 66/233 (28%), Positives = 108/233 (46%), Gaps = 50/233 (21%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKT--STMIA--------- 85
           KYRP++  +++ Q+ VV  L   L+   L H +LF G  G GKT  S ++A         
Sbjct: 9   KYRPRSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPD 68

Query: 86  --------------ACHQL----FGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASG 127
                         AC  +    F D Y     EL+A+ +RG+    D+V+   +Q    
Sbjct: 69  GQGGITATPCGVCQACRDIDSGRFVD-Y----TELDAASNRGV----DEVQQLLEQAVY- 118

Query: 128 FNQDGKPCPP-FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLT- 185
                KP    FK+ ++DE   +T+ A  A+ +T+E+  +  +F L       +  P+T 
Sbjct: 119 -----KPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKV--PVTV 171

Query: 186 -SRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAIT 237
            SRC +F  +P+A  T+L  L  +   E+V  + +AL  L   + G MR A++
Sbjct: 172 LSRCLQFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLARAARGSMRDALS 224

Length = 618

>gnl|CDD|237866 PRK14952, PRK14952, DNA polymerase III subunits gamma and tau; Provisional

 Score = 65.7 bits (160), Expect = 2e-11
 Identities = 76/325 (23%), Positives = 129/325 (39%), Gaps = 50/325 (15%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST-------------- 82
           KYRP T  +V+ Q+ V   L   L    + H +LF GP G GKTS+              
Sbjct: 6   KYRPATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGP 65

Query: 83  ------MIAACHQLF----GDMYRERILELNASDDRGI---QVIRDKVKTFAQQTASGFN 129
                 +  +C  L     G +    ++EL+A+   G+   + +RD+      Q+     
Sbjct: 66  TATPCGVCESCVALAPNGPGSI---DVVELDAASHGGVDDTRELRDRAFYAPAQSR---- 118

Query: 130 QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCS 189
                   ++I I+DEA  +T A   AL + +E+  +   F         ++  + SR  
Sbjct: 119 --------YRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTH 170

Query: 190 KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGE 249
            + F+ L   TM   +  ICEQE V+ D      ++   GG  R  ++ L          
Sbjct: 171 HYPFRLLPPRTMRALIARICEQEGVVVDDAVYPLVIRAGGGSPRDTLSVLDQLLAGAADT 230

Query: 250 GIVNEDVLEVTGVIPKPWIEKL---LKVDSFQVLEKYIEDLILEAYS----ATQLFDQFH 302
            +  +  L + G      I+     L  D    L   IE +I   +     AT L ++F 
Sbjct: 231 HVTYQRALGLLGATDVALIDDAVDALAADDAAALFGAIESVIDAGHDPRRFATDLLERFR 290

Query: 303 DIVMLASSLSDKQKALFKALETLVE 327
           D+++L +      + +  A E ++E
Sbjct: 291 DLIVLQAVPDAAARGVVDAPEDVLE 315

Length = 584

>gnl|CDD|184919 PRK14955, PRK14955, DNA polymerase III subunits gamma and tau; Provisional

 Score = 63.4 bits (154), Expect = 7e-11
 Identities = 72/310 (23%), Positives = 121/310 (39%), Gaps = 50/310 (16%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTM-----IAACHQLF 91
           KYRPK   D+  Q+ +   ++  L    + H ++F G  G GKT+          C ++ 
Sbjct: 9   KYRPKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMI 68

Query: 92  GDM-YRERILE----------------LNASD-DRGIQVIRDKVKTFAQQTASGFNQDGK 133
            D  Y + + E                LN S+ D       D ++   +    G  Q G+
Sbjct: 69  DDADYLQEVTEPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYG-PQKGR 127

Query: 134 PCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRF 193
               +++ I+DE   ++ AA  A  +T+E+      F      +  I   + SRC +F F
Sbjct: 128 ----YRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNF 183

Query: 194 KPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSC---ARLKGGEG 250
           K +    +  +LQ ICE E +  D  AL+ +   + G MR A + L      +    GEG
Sbjct: 184 KRIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEGEG 243

Query: 251 -------------IVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQL 297
                        I +E    VT  +       +L V  F +   Y E   LE     +L
Sbjct: 244 SIRYDKVAELLNYIDDEHFFAVTDAVADGDAVAMLDVAQFVIRNGYDEQDFLE-----KL 298

Query: 298 FDQFHDIVML 307
            +   + +++
Sbjct: 299 IEHLRNFLVV 308

Length = 397

>gnl|CDD|184918 PRK14954, PRK14954, DNA polymerase III subunits gamma and tau; Provisional

 Score = 63.4 bits (154), Expect = 1e-10
 Identities = 75/310 (24%), Positives = 127/310 (40%), Gaps = 50/310 (16%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTM-----IAACHQLF 91
           KYRP    D+  Q+ +   ++  L    + H ++F G  G GKT+          C ++ 
Sbjct: 9   KYRPSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMI 68

Query: 92  GD-MYRERILE----------------LNASD-DRGIQVIRDKVKTFAQQTASGFNQDGK 133
            D +Y + + E                LN S+ D       D ++   +    G  Q G+
Sbjct: 69  DDPVYLQEVTEPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYG-PQKGR 127

Query: 134 PCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRF 193
               +++ I+DE   ++ AA  A  +T+E+      F      +  I   + SRC +F F
Sbjct: 128 ----YRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNF 183

Query: 194 KPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL-QSCARLKGGEG-- 250
           K +  + + ++LQ IC  E +  D  AL+ +   + G MR A + L Q  A   G E   
Sbjct: 184 KRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQGSMRDAQSILDQVIAFSVGSEAEK 243

Query: 251 -------------IVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQL 297
                        I +E   +VT  I +    K+L+V  F +   Y E   LE     +L
Sbjct: 244 VIAYQGVAELLNYIDDEQFFDVTDAIAENDAVKMLEVARFVIDNGYDEQDFLE-----KL 298

Query: 298 FDQFHDIVML 307
            + F + ++L
Sbjct: 299 IEHFRNFLVL 308

Length = 620

>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown domain fusion protein; Reviewed

 Score = 63.5 bits (155), Expect = 1e-10
 Identities = 52/223 (23%), Positives = 95/223 (42%), Gaps = 36/223 (16%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVS---VLKKCLSGADLPHFLFYGPPGTGKTS--TMIAACH 88
           P  ++ RP+T+++ + Q  ++    +L++ +    +   + YGPPG GKT+   +IA   
Sbjct: 17  PLADRLRPRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIA--- 73

Query: 89  QLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADS 148
               +  R     LNA    G++ +R +V   A++      +         I+ +DE   
Sbjct: 74  ----NHTRAHFSSLNAV-LAGVKDLRAEVDR-AKERLERHGKR-------TILFIDEVHR 120

Query: 149 MTHAAQAALRRTMEKETKSTRFCLIC----NYVSCIIQPLTSRCSKFRFKPLAENTMLTR 204
              A Q AL   +E  T      LI     N    + + L SR   FR K L++  +   
Sbjct: 121 FNKAQQDALLPWVENGT----ITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDLHQL 176

Query: 205 LQYICEQE-------SVMCDFKALETLVETSGGDMRRAITCLQ 240
           L+   + +        V  + +A + LV+ + GD R  +  L+
Sbjct: 177 LKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALE 219

Length = 725

>gnl|CDD|221959 pfam13177, DNA_pol3_delta2, DNA polymerase III, delta subunit

 Score = 59.5 bits (145), Expect = 1e-10
 Identities = 44/168 (26%), Positives = 71/168 (42%), Gaps = 30/168 (17%)

Query: 50  QQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST-----MIAACHQLFGDMYRE------ 97
           Q +V+ +LK  +    L H +LF GP G GK            C     D          
Sbjct: 2   QPKVIKLLKNSIKKNKLSHAYLFSGPDGVGKLELALEFAKALFCENPQDDEPCGECKSCK 61

Query: 98  RILELNASDDR---------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADS 148
           RI   N  D            I  IR+ ++ F++     F          K+ I+++A+ 
Sbjct: 62  RIENGNHPDVIIIEPEGKSIKIDQIRELIEEFSK---KPFEG------KKKVYIIEDAEK 112

Query: 149 MTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPL 196
           MT +A  AL +T+E+  ++T F L+ +  + ++  + SRC    FKPL
Sbjct: 113 MTESAANALLKTLEEPPENTYFILLTSNPNKLLPTIRSRCQVINFKPL 160

DNA polymerase III, delta subunit (EC 2.7.7.7) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalyzed reaction. The delta subunit is also known as HolA. Length = 161

>gnl|CDD|184923 PRK14959, PRK14959, DNA polymerase III subunits gamma and tau; Provisional

 Score = 61.6 bits (149), Expect = 4e-10
 Identities = 51/227 (22%), Positives = 92/227 (40%), Gaps = 31/227 (13%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADL-PHFLFYGPPGTGKTS----------- 81
               +YRP+T  +V  Q+ V ++L +      + P +LF G  G GKT+           
Sbjct: 5   SLTARYRPQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC 64

Query: 82  ---------TMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG 132
                         C ++   M+ + ++E++ + +RGI   +   +        G     
Sbjct: 65  ETAPTGEPCNTCEQCRKVTQGMHVD-VVEIDGASNRGIDDAKRLKEAIGYAPMEG----- 118

Query: 133 KPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR 192
                +K+ I+DEA  +T  A  AL +T+E+      F L           + SRC  F 
Sbjct: 119 ----RYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFT 174

Query: 193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL 239
           F  L+E  +   L  +  +E V  D  A+  +   + G +R +++ L
Sbjct: 175 FTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLL 221

Length = 624

>gnl|CDD|237057 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau; Provisional

 Score = 61.0 bits (148), Expect = 7e-10
 Identities = 57/232 (24%), Positives = 100/232 (43%), Gaps = 48/232 (20%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKT--STMIA--------- 85
           K+RP+    ++ Q+ VV  L   L    L H +LF G  G GKT  S ++A         
Sbjct: 9   KWRPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGAD 68

Query: 86  --------------ACHQL----FGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASG 127
                         AC ++    F D      +E++A+ +RG+  +   +        +G
Sbjct: 69  GEGGITAQPCGQCRACTEIDAGRFVDY-----IEMDAASNRGVDEMAQLLDKAVYAPTAG 123

Query: 128 FNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLT-- 185
                     FK+ ++DE   +T+ A  A+ +T+E+  +  +F L       I  P+T  
Sbjct: 124 ---------RFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKI--PVTVL 172

Query: 186 SRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAIT 237
           SRC +F  K +    +++ L  I  +E +  +  AL  L + + G MR A++
Sbjct: 173 SRCLQFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQAAQGSMRDALS 224

Length = 700

>gnl|CDD|237868 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau; Provisional

 Score = 60.8 bits (147), Expect = 7e-10
 Identities = 63/246 (25%), Positives = 112/246 (45%), Gaps = 12/246 (4%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST--MIAACHQLFGDM 94
           KYRP+  ++++ Q  V   L   L    L H +LF G  G GKT+   ++A C      +
Sbjct: 8   KYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGV 67

Query: 95  YR---ERILELNASDD-RGIQVIRDKVKTFAQQTASGFNQDGKPCPP----FKIVILDEA 146
                E      A ++ R I +I     +  +   +    D  P  P    FK+ ++DE 
Sbjct: 68  TSTPCEVCATCKAVNEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEV 127

Query: 147 DSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQ 206
             ++  +  AL +T+E+  +  +F         +   + SRC +F  +PLA + +   L 
Sbjct: 128 HMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLG 187

Query: 207 YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKP 266
            I E+E +  D  A+  + E++ G +R A++ L   A   G   + ++DV E+ G+I + 
Sbjct: 188 AILEKEQIAADQDAIWQIAESAQGSLRDALS-LTDQAIAYGQGAVHHQDVKEMLGLIDRT 246

Query: 267 WIEKLL 272
            I  L+
Sbjct: 247 IIYDLI 252

Length = 702

>gnl|CDD|236011 PRK07399, PRK07399, DNA polymerase III subunit delta'; Validated

 Score = 58.8 bits (143), Expect = 1e-09
 Identities = 51/225 (22%), Positives = 92/225 (40%), Gaps = 29/225 (12%)

Query: 45  DDVIEQQEVVSVLKKCLSGADL-PHFLFYGPPGTGKTSTMIAACHQLF-----GDMYRER 98
            ++I Q   + +L   +    + P +LF GP G G+    +     L          R R
Sbjct: 4   ANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRR 63

Query: 99  ILELNASDDRGIQ---VIRDKVKTFAQQTASGFNQDGKPC---------------PPF-- 138
           + E N  D   ++     + K+ T ++   +G  +   P                PP   
Sbjct: 64  LEEGNHPDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEA 123

Query: 139 --KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPL 196
             K+V++++A++M  AA  AL +T+E+    T   LI      ++  + SRC    F  L
Sbjct: 124 PRKVVVIEDAETMNEAAANALLKTLEEPGNGT-LILIAPSPESLLPTIVSRCQIIPFYRL 182

Query: 197 AENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQS 241
           ++  +   L+ + ++E +  +F  L  L + S G     I  LQS
Sbjct: 183 SDEQLEQVLKRLGDEEILNINFPELLALAQGSPGAAIANIEQLQS 227

Length = 314

>gnl|CDD|184921 PRK14957, PRK14957, DNA polymerase III subunits gamma and tau; Provisional

 Score = 59.7 bits (144), Expect = 1e-09
 Identities = 63/291 (21%), Positives = 128/291 (43%), Gaps = 35/291 (12%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS--TMIAACHQLFGDM 94
           KYRP++  +V  QQ  ++ L   L    + H +LF G  G GKT+   ++A C      +
Sbjct: 9   KYRPQSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGV 68

Query: 95  YRE-----------------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
             E                  ++E++A+   G++  ++ +       + G          
Sbjct: 69  TAEPCNKCENCVAINNNSFIDLIEIDAASRTGVEETKEILDNIQYMPSQG---------R 119

Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
           +K+ ++DE   ++  +  AL +T+E+  +  +F L       I   + SRC +   K ++
Sbjct: 120 YKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKHIS 179

Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVL 257
           +  +  +L+ I  +E++  D ++LE +   + G +R A++ L       GGE +    + 
Sbjct: 180 QADIKDQLKIILAKENINSDEQSLEYIAYHAKGSLRDALSLLDQAISFCGGE-LKQAQIK 238

Query: 258 EVTGVIPKP----WIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDI 304
           ++ G+I        I  ++  D   +L   I++L L   SA  + D+  +I
Sbjct: 239 QMLGIIDSEEVYSIINAIIDNDPKAILPA-IKNLALTESSADAVLDRIAEI 288

Length = 546

>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau; Validated

 Score = 56.8 bits (137), Expect = 2e-08
 Identities = 59/225 (26%), Positives = 102/225 (45%), Gaps = 39/225 (17%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKT--STMIA--------- 85
           K+RPK    ++ Q+ VV  L   L G  L H +LF G  G GKT  S + A         
Sbjct: 9   KWRPKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGV 68

Query: 86  ---------ACHQL----FGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG 132
                    AC ++    F D      +E++A+ +RG+    D++    ++ A     D 
Sbjct: 69  TSQPCGVCRACREIDEGRFVDY-----VEMDAASNRGV----DEMAALLER-AVYAPVDA 118

Query: 133 KPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR 192
           +    FK+ ++DE   +T+ A  A+ +T+E+     +F L       I   + SRC +F 
Sbjct: 119 R----FKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFN 174

Query: 193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAIT 237
            K +    +++ L+ I  +E +  + +AL  L   + G MR A++
Sbjct: 175 LKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQGSMRDALS 219

Length = 830

>gnl|CDD|184922 PRK14958, PRK14958, DNA polymerase III subunits gamma and tau; Provisional

 Score = 55.9 bits (134), Expect = 2e-08
 Identities = 79/330 (23%), Positives = 135/330 (40%), Gaps = 58/330 (17%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKT--STMIAACHQL---- 90
           K+RP+   +VI Q  VV  L   L    L H +LF G  G GKT  S ++A C       
Sbjct: 9   KWRPRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGV 68

Query: 91  ------------------FGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG 132
                             F D++     E++A+    ++  R+ +         G     
Sbjct: 69  SANPCNDCENCREIDEGRFPDLF-----EVDAASRTKVEDTRELLDNIPYAPTKG----- 118

Query: 133 KPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR 192
                FK+ ++DE   ++  +  AL +T+E+     +F L       +   + SRC +F 
Sbjct: 119 ----RFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFH 174

Query: 193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL-QSCARLKGGEGI 251
              L    +    Q++ ++E+V  +  AL+ L   + G +R A++ L QS A   G   I
Sbjct: 175 LAQLPPLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLLDQSIAYGNGKVLI 234

Query: 252 VNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSL 311
            +   +  T       IE LL  D  + L     D +L     T+L +Q  D    +++L
Sbjct: 235 ADVKTMLGT-------IEPLLLFDILEALAAKAGDRLLGC--VTRLVEQGVD---FSNAL 282

Query: 312 SD-----KQKALFKAL-ETLVETSGGDMRR 335
           +D      Q A+ + + E L+E     +R+
Sbjct: 283 ADLLSLLHQIAIIQTVPEALIENDSEQLRQ 312

Length = 509

>gnl|CDD|235845 PRK06647, PRK06647, DNA polymerase III subunits gamma and tau; Validated

 Score = 55.2 bits (133), Expect = 3e-08
 Identities = 53/254 (20%), Positives = 103/254 (40%), Gaps = 30/254 (11%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST-------------- 82
           K RP+  + +  Q  VV  LK  +    + + ++F GP G GKTS+              
Sbjct: 9   KRRPRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGP 68

Query: 83  MIAACHQLFGDMYRER-----ILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
               C +       +      ++E++ + +  +Q +R   +      AS           
Sbjct: 69  TPMPCGECSSCKSIDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASS---------R 119

Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
           +++ I+DE   ++++A  AL +T+E+      F      V  +   + SRC  F F+ L+
Sbjct: 120 YRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFNFRLLS 179

Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVL 257
              +   L+ +C ++ +  + +AL+ +   S G +R A T             I  E + 
Sbjct: 180 LEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDAYTLFDQVVSFSDS-DITLEQIR 238

Query: 258 EVTGVIPKPWIEKL 271
              G+    ++EKL
Sbjct: 239 SKMGLTGDEFLEKL 252

Length = 563

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

 Score = 51.6 bits (123), Expect = 5e-08
 Identities = 34/140 (24%), Positives = 45/140 (32%), Gaps = 15/140 (10%)

Query: 68  HFLFYGPPGTGKTSTMIAACHQLFGDMYR------ERILELNASDDRGIQVIRDKVKTFA 121
             L  GPPG+GKT+   A   +L            E ILE        I V   K     
Sbjct: 4   VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSG 63

Query: 122 QQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRR--------TMEKETKSTRFCLI 173
           +          +   P  ++ILDE  S+  A Q AL           + K  K+    L 
Sbjct: 64  ELRLRLALALARKLKP-DVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILT 122

Query: 174 CNYVSCIIQPLTSRCSKFRF 193
            N    +   L  R    R 
Sbjct: 123 TNDEKDLGPALLRRRFDRRI 142

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|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed

 Score = 53.1 bits (128), Expect = 1e-07
 Identities = 39/126 (30%), Positives = 62/126 (49%), Gaps = 9/126 (7%)

Query: 321 ALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIP-NPWIEKLL---KVD 376
            LE +   +GGD+R+AI  LQ+ A L  GE I  E   E  G +  +  IE LL   +  
Sbjct: 208 GLELIAYYAGGDLRKAILTLQTAA-LAAGE-ITMEAAYEALGDVGTDEVIESLLDAAEAG 265

Query: 377 SFQVLEKYIEDLIL-EAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGA 435
            F    K ++DL++ E  S  ++ ++   +    S       A +    A+ +ARL DGA
Sbjct: 266 DFTDARKTLDDLLIDEGLSGGEVLEELLRVA--RSRYRGDNLARLHRLAADADARLTDGA 323

Query: 436 SEYIQI 441
           ++ IQ+
Sbjct: 324 NDRIQL 329

Length = 337

>gnl|CDD|237862 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau; Provisional

 Score = 53.0 bits (128), Expect = 2e-07
 Identities = 71/253 (28%), Positives = 117/253 (46%), Gaps = 41/253 (16%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCL-SGADLPHFLFYGPPGTGKT-STMIAA--------- 86
           KYRP+  D+++ Q+ + + LK  L S    P +LF GP GTGKT S  I A         
Sbjct: 9   KYRPQRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSD 68

Query: 87  ------------CHQLFGDMYRERILELNASDDRGIQVIRDKVK--TFAQQTASGFNQDG 132
                       C  +        ++E++A+ + G+  IR+ ++   FA   A       
Sbjct: 69  KPTPEPCGKCELCRAI-AAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQAR------ 121

Query: 133 KPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR 192
                +K+ ++DE   ++ AA  AL +T+E+      F L       ++  + SRC +F 
Sbjct: 122 -----WKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIISRCQRFD 176

Query: 193 FKPLAENTMLTRLQYICEQESVMCDFKALETLV-ETSGGDMRRAITCLQSCARLKGGEGI 251
           F+ +    M+  L  I E+ES+  + +AL TLV + S G +R A + L   + L G   I
Sbjct: 177 FRRIPLEAMVQHLSEIAEKESIEIEPEAL-TLVAQRSQGGLRDAESLLDQLSLLPG--PI 233

Query: 252 VNEDVLEVTGVIP 264
             E V ++ G +P
Sbjct: 234 TPEAVWDLLGAVP 246

Length = 620

>gnl|CDD|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB

 Score = 52.9 bits (127), Expect = 2e-07
 Identities = 23/48 (47%), Positives = 31/48 (64%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTS 81
           P  EK RPK+ D++I Q+E +  LK  L G +  H + YGPPG GKT+
Sbjct: 54  PLSEKTRPKSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTA 101

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 [Protein fate, Degradation of proteins, peptides, and glycopeptides, Cellular processes, Sporulation and germination]. Length = 531

>gnl|CDD|169667 PRK09112, PRK09112, DNA polymerase III subunit delta'; Validated

 Score = 52.0 bits (125), Expect = 3e-07
 Identities = 37/130 (28%), Positives = 60/130 (46%), Gaps = 13/130 (10%)

Query: 109 GIQV--IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK 166
            I V  IR     F  QT+   N        ++IVI+D AD M   A  A+ +T+E+   
Sbjct: 120 AITVDEIRRVGH-FLSQTSGDGN--------WRIVIIDPADDMNRNAANAILKTLEEPPA 170

Query: 167 STRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVE 226
              F LI +    ++  + SRC     KPL ++ +   L ++    S   D +  E L++
Sbjct: 171 RALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHL--GSSQGSDGEITEALLQ 228

Query: 227 TSGGDMRRAI 236
            S G +R+A+
Sbjct: 229 RSKGSVRKAL 238

Length = 351

>gnl|CDD|129690 TIGR00602, rad24, checkpoint protein rad24

 Score = 52.7 bits (126), Expect = 3e-07
 Identities = 49/258 (18%), Positives = 87/258 (33%), Gaps = 56/258 (21%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-----FLFYGPPGTGKTSTMIAACH 88
           PWVEKY+P+T  ++   ++ +  ++  L    L +      L  GP G GK ST I    
Sbjct: 73  PWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGK-STTIKILS 131

Query: 89  QLFGDMYRERI----LELNASDDRGIQVIRDKVKTFAQQTAS---------------GFN 129
           +  G   +E       +   +D +    +      F  Q                  G +
Sbjct: 132 KELGIQVQEWSNPTLPDFQKNDHKVTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDD 191

Query: 130 QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTS--- 186
                    KI+++++  +  +    AL   +  +  S   C +   ++  ++   +   
Sbjct: 192 LMTDK----KIILVEDLPNQFYRDTRALHEILRWKYVSIGRCPLVFIITESLEGDNNQRR 247

Query: 187 -----------------RCSKFRFKPLAENTMLTRLQYICEQESVM-------CDFKALE 222
                            R S   F P+A   M   L  I   E+             ++E
Sbjct: 248 LLFPAETIMNKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVE 307

Query: 223 TLVETSGGDMRRAITCLQ 240
            L +   GD+R AI  LQ
Sbjct: 308 LLCQGCSGDIRSAINSLQ 325

All proteins in this family for which functions are known are involved in DNA damage tolerance (likely cell cycle checkpoints).This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 637

>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed

 Score = 51.7 bits (125), Expect = 3e-07
 Identities = 21/47 (44%), Positives = 28/47 (59%), Gaps = 5/47 (10%)

Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTS 81
          RPK++D+ I Q++V   LK  +  A      L H L YGPPG GKT+
Sbjct: 20 RPKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTT 66

Length = 328

>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein

 Score = 52.3 bits (125), Expect = 3e-07
 Identities = 52/250 (20%), Positives = 92/250 (36%), Gaps = 44/250 (17%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-----FLFYGPPGTGKTSTMIAACH 88
            W EKY+P+  D++   ++ ++ +   L    L        L  GP G GK++T+     
Sbjct: 8   LWTEKYKPRRRDELAIHKKKIAEVDHWLKAVFLESNKQLILLLTGPSGCGKSTTVKVLSK 67

Query: 89  QLFGDMYRERI---------LELNASDDRGIQVIRD--KVKTFAQ--QTASGFNQDGKPC 135
           +L G    E            E    D RG  ++    +++ F +     + +       
Sbjct: 68  EL-GIEIIEWSNPEYLHNPDNECQKPDFRGDCIVNSLSQMEQFREFLLRGARYGSLQGGG 126

Query: 136 PPFKIVILDEADSMTHAAQAALRRTMEKETKSTR-----FCL-ICNYVSCIIQP------ 183
              K+++++E  +  ++     R  + +  +S       FCL  CN +            
Sbjct: 127 LKKKLILVEELPNQFYSDAEKFREVIREVLQSIWHLPLIFCLTECNSLEGDNNQDRFGID 186

Query: 184 ----------LTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFK---ALETLVETSGG 230
                     +  R     F P+A   M   L  I  QE  +   K    LE + + +GG
Sbjct: 187 AETIMTKDILIMPRIDTITFNPIAPTFMKKALVRISVQEGKLKSPKSDSKLEVICQEAGG 246

Query: 231 DMRRAITCLQ 240
           D+R AI  LQ
Sbjct: 247 DLRSAINSLQ 256

Length = 490

>gnl|CDD|203260 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB N-terminus

 Score = 48.2 bits (116), Expect = 3e-06
 Identities = 22/54 (40%), Positives = 29/54 (53%), Gaps = 6/54 (11%)

Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTS-TMIAAC 87
          RP+ +D+ I Q++V   LK  +  A      L H L YGPPG GKT+   I A 
Sbjct: 19 RPRRLDEYIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIAN 72

The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein. Length = 231

>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

 Score = 48.7 bits (117), Expect = 3e-06
 Identities = 20/47 (42%), Positives = 28/47 (59%), Gaps = 5/47 (10%)

Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTS 81
          RPKT+D+ I Q++V   L+  +  A      L H L +GPPG GKT+
Sbjct: 21 RPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTT 67

Length = 332

>gnl|CDD|223546 COG0470, HolB, ATPase involved in DNA replication [DNA replication, recombination, and repair]

 Score = 47.3 bits (112), Expect = 4e-06
 Identities = 39/140 (27%), Positives = 63/140 (45%), Gaps = 12/140 (8%)

Query: 311 LSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPW-- 368
           L        + LE +   + GD R+AI  LQ+ A L+ GE  + E +L     +P     
Sbjct: 76  LEAIAWLEDQGLEEIAAVAEGDARKAINPLQALAALEIGEESIYEALLL---ALPESLAQ 132

Query: 369 --IEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS--ASSLSDKQKALIL 421
               +LLK+      + LEK    L+LE      L DQ    ++    + + +++ A +L
Sbjct: 133 LAALELLKLAENKFLEALEKLWLLLLLEGLLGEDLLDQLQRELLKLDKALIQEEKAAELL 192

Query: 422 EKLAECNARLQDGASEYIQI 441
           + LA+   RL DG    IQ+
Sbjct: 193 DALAQARRRLLDGLLALIQL 212

Length = 230

>gnl|CDD|236022 PRK07471, PRK07471, DNA polymerase III subunit delta'; Validated

 Score = 48.5 bits (116), Expect = 4e-06
 Identities = 30/112 (26%), Positives = 50/112 (44%), Gaps = 11/112 (9%)

Query: 139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAE 198
           ++VI+D AD M   A  AL + +E+    + F L+ +  + ++  + SRC K R +PLA 
Sbjct: 143 RVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAP 202

Query: 199 NTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEG 250
             ++  L                  L   + G + RA+       RL GG+G
Sbjct: 203 EDVIDAL----AAAGPDLPDDPRAALAALAEGSVGRAL-------RLAGGDG 243

Length = 365

>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

 Score = 47.7 bits (114), Expect = 6e-06
 Identities = 60/291 (20%), Positives = 104/291 (35%), Gaps = 41/291 (14%)

Query: 49  EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR 108
           E  ++ S L   L G    + + YGP GTGKT+T+     +L        ++ +N  + R
Sbjct: 25  EINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELR 84

Query: 109 G-IQVIRDKVKTFAQQTASG-------------FNQDGKPCPPFKIVILDEADSMTHAAQ 154
              QV+   +    +   +G              ++ GK      IVILDE D++     
Sbjct: 85  TPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTV----IVILDEVDALVDKDG 140

Query: 155 AALR---RTMEKETKSTRFCLICN---YVSCIIQPLTSRCSKFR--FKPLAENTMLTRLQ 206
             L    R   +         + N   ++  +   + S        F P     +   L+
Sbjct: 141 EVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDPRVKSSLGPSEIVFPPYTAEELYDILR 200

Query: 207 Y---ICEQESVMCDFKALE---TLVETSGGDMRRAITCLQSCARLKGGEG---IVNEDVL 257
                     V  D   L+    LV    GD R+AI  L+    +   EG   +  + V 
Sbjct: 201 ERVEEGFSAGV-IDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVR 259

Query: 258 EVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSAT---QLFDQFHDIV 305
           E    I +  +E++LK       +K +   I+E        +L+D +  + 
Sbjct: 260 EAQEEIERDVLEEVLKTLPLH--QKIVLLAIVELTVEISTGELYDVYESLC 308

Length = 366

>gnl|CDD|235223 PRK04132, PRK04132, replication factor C small subunit; Provisional

 Score = 47.5 bits (113), Expect = 1e-05
 Identities = 38/124 (30%), Positives = 63/124 (50%), Gaps = 7/124 (5%)

Query: 322 LETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKL----LKVDS 377
           L+ ++  + GDMRRAI  LQ+ A L   + I +E+V  V        I ++    LK + 
Sbjct: 714 LQAILYIAEGDMRRAINILQAAAALD--DKITDENVFLVASRARPEDIREMMLLALKGNF 771

Query: 378 FQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASE 437
            +  EK  E L+ +  S   +  Q H  V +   + + +K  + +K+ E N RL +GA+E
Sbjct: 772 LKAREKLREILLKQGLSGEDVLVQMHREVFNL-PIDEPKKVELADKIGEYNFRLVEGANE 830

Query: 438 YIQI 441
            IQ+
Sbjct: 831 MIQL 834

Length = 846

>gnl|CDD|221912 pfam13086, AAA_11, AAA domain

 Score = 43.5 bits (103), Expect = 8e-05
 Identities = 18/44 (40%), Positives = 28/44 (63%), Gaps = 2/44 (4%)

Query: 57  LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERIL 100
           +KK LS +D+   L  GPPGTGKT+T++    QL  +   +++L
Sbjct: 10  IKKALSSSDI--TLIQGPPGTGKTTTIVEIIKQLLSNAPGKKVL 51

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. Length = 220

>gnl|CDD|180132 PRK05564, PRK05564, DNA polymerase III subunit delta'; Validated

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 18/69 (26%), Positives = 36/69 (52%)

Query: 139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAE 198
           K++I+  ++ MT  AQ A  +T+E+  K     L+C  +  I+  + SRC  ++   L++
Sbjct: 95  KVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSK 154

Query: 199 NTMLTRLQY 207
             +   + Y
Sbjct: 155 EEIEKFISY 163

Length = 313

>gnl|CDD|180738 PRK06871, PRK06871, DNA polymerase III subunit delta'; Validated

 Score = 42.8 bits (101), Expect = 2e-04
 Identities = 37/137 (27%), Positives = 59/137 (43%), Gaps = 20/137 (14%)

Query: 107 DRGIQVIRD---KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEK 163
           D G+  +R+   KV   AQQ   G N         K+V +  A+ +T AA  AL +T+E+
Sbjct: 86  DIGVDQVREINEKVSQHAQQ---GGN---------KVVYIQGAERLTEAAANALLKTLEE 133

Query: 164 ETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALET 223
              +T F L  +  + ++  + SRC  +   P  E   L  LQ     E        + T
Sbjct: 134 PRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPEEQQALDWLQAQSSAEI-----SEILT 188

Query: 224 LVETSGGDMRRAITCLQ 240
            +  + G    A+T L+
Sbjct: 189 ALRINYGRPLLALTFLE 205

Length = 325

>gnl|CDD|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated

 Score = 42.4 bits (100), Expect = 3e-04
 Identities = 52/210 (24%), Positives = 87/210 (41%), Gaps = 47/210 (22%)

Query: 107 DRGIQV--IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE 164
           D+ I+V  +R+ V +F  QTA      G      K+V+++ A++M   A  AL +++E+ 
Sbjct: 83  DKTIKVDQVRELV-SFVVQTA---QLGG-----RKVVLIEPAEAMNRNAANALLKSLEEP 133

Query: 165 TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETL 224
           +  T   LI +  S ++  + SRC +      +    L  LQ    Q     D +    L
Sbjct: 134 SGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQ----QALPESDERERIEL 189

Query: 225 VETSGGDMRRAITCLQSCARLKGGEGIVNEDVLE-----VTGVIPKPWIEKLLK--VDSF 277
           +  +GG   RA+       +L        + V E     + GV       KLLK    + 
Sbjct: 190 LTLAGGSPLRAL-------QLHE------QGVREQRARVLDGVK------KLLKQQQSAS 230

Query: 278 QVLEKYIEDLILEAYSATQLFDQFHDIVML 307
           Q+ E +++  +L       LFD F D    
Sbjct: 231 QLAESWLKVPLLL------LFDWFCDWAHD 254

Length = 328

>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated

 Score = 43.1 bits (102), Expect = 3e-04
 Identities = 20/46 (43%), Positives = 26/46 (56%), Gaps = 1/46 (2%)

Query: 38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST 82
          +YRP T  +VI Q+ V   L   L    + H +LF GP G GKTS+
Sbjct: 8  RYRPATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSS 53

Length = 824

>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI

 Score = 40.2 bits (95), Expect = 7e-04
 Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 5/60 (8%)

Query: 46  DVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAAC-HQLFGDMYRERILELNA 104
           DV  Q++    L+   +G    + L  GPPG+GK  TM+A     +   +  +  LE+ A
Sbjct: 4   DVKGQEQAKRALEIAAAGGH--NLLMIGPPGSGK--TMLAKRLPGILPPLTEQEALEVTA 59

Magnesium-chelatase is a three-component enzyme that catalyzes the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa. Length = 207

>gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit

 Score = 40.7 bits (96), Expect = 0.001
 Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 6/52 (11%)

Query: 42 KTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTS-TMIAAC 87
          K + + I Q++V   L+  +  A      L H L YGPPG GKT+   I A 
Sbjct: 1  KLLAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIAN 52

All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. 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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 305

>gnl|CDD|129465 TIGR00368, TIGR00368, Mg chelatase-related protein

 Score = 40.2 bits (94), Expect = 0.002
 Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 7/80 (8%)

Query: 28  TRNKPVPWVEKYRPKTID--DVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIA 85
           T  KP   + K     +D  D+  QQ     L+   +G    + L +GPPG+GK  TM+A
Sbjct: 173 TNTKPKSIINKSYIIDLDLKDIKGQQHAKRALEIAAAGGH--NLLLFGPPGSGK--TMLA 228

Query: 86  ACHQ-LFGDMYRERILELNA 104
           +  Q +   +  E  +E   
Sbjct: 229 SRLQGILPPLTNEEAIETAR 248

The N-terminal end matches very strongly a pfam Mg_chelatase domain [Unknown function, General]. Length = 499

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

 Score = 39.8 bits (93), Expect = 0.002
 Identities = 38/147 (25%), Positives = 62/147 (42%), Gaps = 26/147 (17%)

Query: 15  PSSSKTSVSTSG-KTRNKPVPWVEKYRPKTIDDVIEQQEV---VSVLKKCLSGADL---- 66
           PS      ST+            E     T+DDVI Q+E      ++ + L   +     
Sbjct: 90  PSGGGIITSTTIFVLETPREEDREIISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDW 149

Query: 67  --PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQT 124
              + LFYGPPGTGKT    A  ++      +  +L + A+     ++I + V   A++ 
Sbjct: 150 APKNVLFYGPPGTGKTMMAKALANEA-----KVPLLLVKAT-----ELIGEHVGDGARRI 199

Query: 125 ASGFNQDGK--PCPPFKIVILDEADSM 149
              + +  K  PC    IV +DE D++
Sbjct: 200 HELYERARKAAPC----IVFIDELDAI 222

Length = 368

>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation protein

 Score = 38.8 bits (91), Expect = 0.004
 Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 5/57 (8%)

Query: 37 EKYRPKTI---DDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL 90
            Y P  I   D+ IE  E+   L+  L G+   +   YG  GTGKT+       +L
Sbjct: 10 PDYVPDRIVHRDEQIE--ELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKEL 64

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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 365

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	456
KOG0991|consensus	333		100.0
KOG0989|consensus	346		100.0
PLN03025	319	replication factor C subunit; Provisional	100.0
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK00440	319	rfc replication factor C small subunit; Reviewed	100.0
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	100.0
KOG0990|consensus	360		100.0
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	100.0
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	100.0
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK12402	337	replication factor C small subunit 2; Reviewed	100.0
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	100.0
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	100.0
PRK04132	846	replication factor C small subunit; Provisional	100.0
KOG2035|consensus	351		100.0
PHA02544	316	44 clamp loader, small subunit; Provisional	100.0
COG2256	436	MGS1 ATPase related to the helicase subunit of the	100.0
PRK04195	482	replication factor C large subunit; Provisional	99.97
PRK13342	413	recombination factor protein RarA; Reviewed	99.97
PRK13341	725	recombination factor protein RarA/unknown domain f	99.96
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.96
PRK05907	311	hypothetical protein; Provisional	99.95
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.95
KOG2028|consensus	554		99.94
PRK07914	320	hypothetical protein; Reviewed	99.94
PRK07452	326	DNA polymerase III subunit delta; Validated	99.94
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.93
PRK05629	318	hypothetical protein; Validated	99.93
PRK06585	343	holA DNA polymerase III subunit delta; Reviewed	99.92
PRK08487	328	DNA polymerase III subunit delta; Validated	99.91
PRK05574	340	holA DNA polymerase III subunit delta; Reviewed	99.91
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.91
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.9
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.9
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.9
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.89
KOG1969|consensus	877		99.89
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.89
TIGR01128	302	holA DNA polymerase III, delta subunit. subunit ar	99.89
PRK07993	334	DNA polymerase III subunit delta'; Validated	99.88
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.88
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.88
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.88
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.88
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.87
COG1466	334	HolA DNA polymerase III, delta subunit [DNA replic	99.86
PRK06871	325	DNA polymerase III subunit delta'; Validated	99.86
PRK07132	299	DNA polymerase III subunit delta'; Validated	99.85
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.83
PRK08769	319	DNA polymerase III subunit delta'; Validated	99.82
PRK08084	235	DNA replication initiation factor; Provisional	99.82
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.82
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.82
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.81
PRK06090	319	DNA polymerase III subunit delta'; Validated	99.81
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.81
PRK06893	229	DNA replication initiation factor; Validated	99.81
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.8
PRK05917	290	DNA polymerase III subunit delta'; Validated	99.8
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.8
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.8
PRK08727	233	hypothetical protein; Validated	99.79
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.77
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.77
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	99.77
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.77
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.76
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.75
PRK06620	214	hypothetical protein; Validated	99.74
KOG1970|consensus	634		99.74
PRK08699	325	DNA polymerase III subunit delta'; Validated	99.74
PRK05642	234	DNA replication initiation factor; Validated	99.73
CHL00181	287	cbbX CbbX; Provisional	99.73
PRK07276	290	DNA polymerase III subunit delta'; Validated	99.73
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.72
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.72
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.71
PRK09087	226	hypothetical protein; Validated	99.7
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.7
PRK05818	261	DNA polymerase III subunit delta'; Validated	99.69
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.68
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.67
PRK12422	445	chromosomal replication initiation protein; Provis	99.67
CHL00195	489	ycf46 Ycf46; Provisional	99.66
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.66
KOG0730|consensus	693		99.65
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.64
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.64
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.63
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.63
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.63
CHL00176	638	ftsH cell division protein; Validated	99.63
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.62
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.61
PF08542	89	Rep_fac_C: Replication factor C C-terminal domain;	99.61
KOG0733|consensus	802		99.6
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.58
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.58
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.55
KOG0738|consensus	491		99.55
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.55
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.54
KOG0727|consensus	408		99.52
KOG0734|consensus	752		99.52
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.52
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.52
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.51
COG2204	464	AtoC Response regulator containing CheY-like recei	99.51
KOG0731|consensus	774		99.5
KOG0730|consensus	693		99.49
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.49
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.49
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.48
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.48
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.48
KOG0733|consensus	802		99.48
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.48
PRK06581	263	DNA polymerase III subunit delta'; Validated	99.48
KOG0739|consensus	439		99.48
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.47
KOG1968|consensus	871		99.47
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.46
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.46
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.46
KOG1942|consensus	456		99.45
KOG0737|consensus	386		99.45
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.45
KOG0743|consensus	457		99.44
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.44
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.44
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.43
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.43
PRK10865	857	protein disaggregation chaperone; Provisional	99.43
CHL00095	821	clpC Clp protease ATP binding subunit	99.43
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.42
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.42
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	99.41
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.41
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	99.41
KOG1514|consensus	767		99.4
CHL00095	821	clpC Clp protease ATP binding subunit	99.39
CHL00206	2281	ycf2 Ycf2; Provisional	99.37
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.37
KOG0728|consensus	404		99.37
PRK10865	857	protein disaggregation chaperone; Provisional	99.37
KOG0652|consensus	424		99.37
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.37
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.37
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.36
PF00004	132	AAA: ATPase family associated with various cellula	99.36
KOG0726|consensus	440		99.35
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.35
KOG2004|consensus	906		99.35
PRK05022	509	anaerobic nitric oxide reductase transcription reg	99.35
KOG2227|consensus	529		99.34
PRK13531	498	regulatory ATPase RavA; Provisional	99.33
KOG0742|consensus	630		99.31
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.31
KOG0729|consensus	435		99.3
PRK14700	300	recombination factor protein RarA; Provisional	99.3
PF06144	172	DNA_pol3_delta: DNA polymerase III, delta subunit;	99.3
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.29
KOG0740|consensus	428		99.28
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.28
KOG2680|consensus	454		99.27
KOG0736|consensus	953		99.27
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	99.27
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.27
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.26
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.25
PRK08485	206	DNA polymerase III subunit delta'; Validated	99.24
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.23
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.23
KOG0735|consensus	952		99.23
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.22
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.21
PRK15115	444	response regulator GlrR; Provisional	99.18
KOG0744|consensus	423		99.17
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.16
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.15
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.14
KOG0732|consensus	1080		99.13
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.11
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.11
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	99.09
KOG0735|consensus	952		99.09
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.07
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	99.07
PRK13765	637	ATP-dependent protease Lon; Provisional	99.05
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.04
KOG0651|consensus	388		99.01
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.0
COG0714	329	MoxR-like ATPases [General function prediction onl	98.99
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	98.99
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	98.97
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	98.95
smart00350	509	MCM minichromosome maintenance proteins.	98.95
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	98.94
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.92
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.9
PHA02244	383	ATPase-like protein	98.9
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	98.89
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	98.86
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	98.85
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.85
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.83
PF13173	128	AAA_14: AAA domain	98.78
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	98.75
KOG2170|consensus	344		98.74
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.69
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	98.66
KOG0741|consensus	744		98.64
PRK12377	248	putative replication protein; Provisional	98.64
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	98.63
PRK09862	506	putative ATP-dependent protease; Provisional	98.6
PF07726	131	AAA_3: ATPase family associated with various cellu	98.59
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	98.57
smart00382	148	AAA ATPases associated with a variety of cellular	98.52
PRK08181	269	transposase; Validated	98.51
PRK08116	268	hypothetical protein; Validated	98.51
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.49
COG4650	531	RtcR Sigma54-dependent transcription regulator con	98.49
PF05729	166	NACHT: NACHT domain	98.48
KOG1051|consensus	898		98.46
PRK07952	244	DNA replication protein DnaC; Validated	98.45
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.44
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.44
KOG0745|consensus	564		98.44
PRK06526	254	transposase; Provisional	98.42
PF14516	331	AAA_35: AAA-like domain	98.41
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.4
PRK04841	903	transcriptional regulator MalT; Provisional	98.39
PRK04132	846	replication factor C small subunit; Provisional	98.36
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.35
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.32
PRK06835	329	DNA replication protein DnaC; Validated	98.32
KOG0736|consensus	953		98.3
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.27
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.26
PRK06921	266	hypothetical protein; Provisional	98.23
PRK08939	306	primosomal protein DnaI; Reviewed	98.22
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.18
KOG0482|consensus	721		98.17
PHA00729	226	NTP-binding motif containing protein	98.13
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.1
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	98.08
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.08
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	98.04
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	98.04
PRK09183	259	transposase/IS protein; Provisional	98.01
KOG2543|consensus	438		97.96
PHA02774	613	E1; Provisional	97.95
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.95
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.93
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.92
COG1241	682	MCM2 Predicted ATPase involved in replication cont	97.92
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.91
KOG0741|consensus	744		97.88
KOG0478|consensus	804		97.87
PHA02624	647	large T antigen; Provisional	97.85
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.85
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	97.79
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	97.79
PRK04296	190	thymidine kinase; Provisional	97.76
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	97.69
PRK10536	262	hypothetical protein; Provisional	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	97.68
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.68
PF12169	143	DNA_pol3_gamma3: DNA polymerase III subunits gamma	97.64
KOG0480|consensus	764		97.63
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.63
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.62
KOG3347|consensus	176		97.61
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.58
PTZ00202	550	tuzin; Provisional	97.51
COG3899	849	Predicted ATPase [General function prediction only	97.49
KOG0477|consensus	854		97.47
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	97.46
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	97.46
KOG2228|consensus	408		97.45
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.45
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.42
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.4
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.4
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	97.39
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	97.34
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.33
PRK15455	644	PrkA family serine protein kinase; Provisional	97.29
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.23
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	97.23
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.23
PRK14974	336	cell division protein FtsY; Provisional	97.21
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.19
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	97.18
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	97.18
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.18
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.17
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.17
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.16
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	97.15
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.15
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	97.1
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.09
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.08
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.08
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.07
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	97.05
PRK13695	174	putative NTPase; Provisional	97.04
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.03
PRK10875	615	recD exonuclease V subunit alpha; Provisional	97.02
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.01
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.01
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	96.99
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.99
PRK06067	234	flagellar accessory protein FlaH; Validated	96.97
PRK13889	988	conjugal transfer relaxase TraA; Provisional	96.96
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.95
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.95
KOG0481|consensus	729		96.94
PRK11823	446	DNA repair protein RadA; Provisional	96.93
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.9
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	96.87
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	96.86
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.84
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.83
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	96.83
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	96.82
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.8
PF13479	213	AAA_24: AAA domain	96.8
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.8
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.78
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.75
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.74
PRK08118	167	topology modulation protein; Reviewed	96.73
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.72
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.71
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.7
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	96.69
KOG1051|consensus	898		96.67
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.67
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.66
TIGR01613	304	primase_Cterm phage/plasmid primase, P4 family, C-	96.66
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.63
KOG4658|consensus	889		96.63
PRK14532	188	adenylate kinase; Provisional	96.63
PF13245	76	AAA_19: Part of AAA domain	96.6
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	96.6
cd01128	249	rho_factor Transcription termination factor rho is	96.59
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.59
PRK13826	1102	Dtr system oriT relaxase; Provisional	96.59
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.58
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.57
PRK10416	318	signal recognition particle-docking protein FtsY;	96.54
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	96.53
smart00487	201	DEXDc DEAD-like helicases superfamily.	96.52
PRK04328	249	hypothetical protein; Provisional	96.52
PRK09354	349	recA recombinase A; Provisional	96.52
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.5
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.5
PRK05973	237	replicative DNA helicase; Provisional	96.49
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	96.45
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.44
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.43
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.43
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.41
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.41
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.41
PRK14527	191	adenylate kinase; Provisional	96.4
KOG3928|consensus	461		96.38
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	96.38
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.37
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.37
PRK07261	171	topology modulation protein; Provisional	96.36
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	96.35
PRK14528	186	adenylate kinase; Provisional	96.34
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	96.34
PRK13341	725	recombination factor protein RarA/unknown domain f	96.33
PRK06547	172	hypothetical protein; Provisional	96.33
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.29
PRK06696	223	uridine kinase; Validated	96.27
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.26
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.23
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.21
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.21
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.21
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	96.19
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.18
PRK09376	416	rho transcription termination factor Rho; Provisio	96.17
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	96.14
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.13
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	96.12
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.12
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.11
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.11
PRK00131	175	aroK shikimate kinase; Reviewed	96.11
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.1
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.08
PHA02530	300	pseT polynucleotide kinase; Provisional	96.07
KOG1808|consensus	1856		96.07
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.07
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.03
PRK13947	171	shikimate kinase; Provisional	96.03
PRK04220	301	2-phosphoglycerate kinase; Provisional	96.02
COG1100	219	GTPase SAR1 and related small G proteins [General	96.02
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.01
PRK06762	166	hypothetical protein; Provisional	96.0
TIGR00767	415	rho transcription termination factor Rho. Members	96.0
COG4178	604	ABC-type uncharacterized transport system, permeas	95.99
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	95.97
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	95.96
PRK07667	193	uridine kinase; Provisional	95.95
PRK03839	180	putative kinase; Provisional	95.95
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	95.94
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.93
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	95.93
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	95.93
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.92
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	95.91
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.91
PF13337	457	Lon_2: Putative ATP-dependent Lon protease	95.91
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	95.91
cd03246	173	ABCC_Protease_Secretion This family represents the	95.91
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.9
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	95.9
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.89
PRK10867	433	signal recognition particle protein; Provisional	95.89
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	95.87
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	95.86
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	95.85
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	95.81
TIGR01663	526	PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase	95.8
PRK12608	380	transcription termination factor Rho; Provisional	95.78
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	95.78
PRK13808	333	adenylate kinase; Provisional	95.76
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.76
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	95.76
PRK14737	186	gmk guanylate kinase; Provisional	95.74
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	95.74
PRK14712	1623	conjugal transfer nickase/helicase TraI; Provision	95.74
PRK13709	1747	conjugal transfer nickase/helicase TraI; Provision	95.72
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	95.72
PRK00625	173	shikimate kinase; Provisional	95.71
COG1485	367	Predicted ATPase [General function prediction only	95.71
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.71
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	95.69
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	95.67
PLN02674	244	adenylate kinase	95.67
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.67
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	95.66
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	95.66
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	95.66
PF06431	417	Polyoma_lg_T_C: Polyomavirus large T antigen C-ter	95.66
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	95.66
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	95.65
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	95.63
PRK14531	183	adenylate kinase; Provisional	95.62
TIGR02760	1960	TraI_TIGR conjugative transfer relaxase protein Tr	95.62
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.6
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	95.6
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	95.6
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.58
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	95.58
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.58
PRK13949	169	shikimate kinase; Provisional	95.57
KOG0989|consensus	346		95.56
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.56
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	95.55
KOG0922|consensus	674		95.55
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	95.54
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.53
PRK14530	215	adenylate kinase; Provisional	95.53

>KOG0991|consensus

Probab=100.00  E-value=2.1e-53  Score=373.72  Aligned_cols=321  Identities=35%  Similarity=0.584  Sum_probs=285.1

Q ss_pred             CCCCCCCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC
Q psy12150         25 SGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        25 ~~~~~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      .........||+|||||..++||+|+++.++.+.-..+.|+.||++|.||||+||||.+.++++++.++.+...++|+|+
T Consensus         7 ~~~~~~~~l~wVeKYrP~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNA   86 (333)
T KOG0991|consen    7 MSKSDKYQLPWVEKYRPSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNA   86 (333)
T ss_pred             CCccccccchHHHhhCchHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccC
Confidence            33444566789999999999999999999999999999999999999999999999999999999999888888999999


Q ss_pred             CCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccc
Q psy12150        105 SDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPL  184 (456)
Q Consensus       105 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l  184 (456)
                      +++++.+.+++.++.|++.....      |...+++||+||+|.|+..+|++|++.||=++..++|+++||...|+++++
T Consensus        87 SdeRGIDvVRn~IK~FAQ~kv~l------p~grhKIiILDEADSMT~gAQQAlRRtMEiyS~ttRFalaCN~s~KIiEPI  160 (333)
T KOG0991|consen   87 SDERGIDVVRNKIKMFAQKKVTL------PPGRHKIIILDEADSMTAGAQQALRRTMEIYSNTTRFALACNQSEKIIEPI  160 (333)
T ss_pred             ccccccHHHHHHHHHHHHhhccC------CCCceeEEEeeccchhhhHHHHHHHHHHHHHcccchhhhhhcchhhhhhhH
Confidence            99999999999999999886543      223788999999999999999999999999999999999999999999999


Q ss_pred             cCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCC
Q psy12150        185 TSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIP  264 (456)
Q Consensus       185 ~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~  264 (456)
                      .|||..+.|..++..++...|..+++.|++.++++.++.++..+.||+|+++|.||....  +-+.|+.+.         
T Consensus       161 QSRCAiLRysklsd~qiL~Rl~~v~k~Ekv~yt~dgLeaiifta~GDMRQalNnLQst~~--g~g~Vn~en---------  229 (333)
T KOG0991|consen  161 QSRCAILRYSKLSDQQILKRLLEVAKAEKVNYTDDGLEAIIFTAQGDMRQALNNLQSTVN--GFGLVNQEN---------  229 (333)
T ss_pred             HhhhHhhhhcccCHHHHHHHHHHHHHHhCCCCCcchHHHhhhhccchHHHHHHHHHHHhc--cccccchhh---------
Confidence            999999999999999999999999999999999999998888888888888887776543  112333333         


Q ss_pred             HHHHHHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhh
Q psy12150        265 KPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCA  344 (456)
Q Consensus       265 ~~~i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~  344 (456)
                                                                                                      
T Consensus       230 --------------------------------------------------------------------------------  229 (333)
T KOG0991|consen  230 --------------------------------------------------------------------------------  229 (333)
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             hhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q psy12150        345 RLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALIL  421 (456)
Q Consensus       345 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~  421 (456)
                                  |+++++.|.|..+++++.   ..++.++++.+..+|+.|||..||+..++++++++ ++++..+.+++
T Consensus       230 ------------VfKv~d~PhP~~v~~ml~~~~~~~~~~A~~il~~lw~lgysp~Dii~~~FRv~K~~-~~~E~~rlE~i  296 (333)
T KOG0991|consen  230 ------------VFKVCDEPHPLLVKKMLQACLKRNIDEALKILAELWKLGYSPEDIITTLFRVVKNM-DVAESLRLEFI  296 (333)
T ss_pred             ------------hhhccCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cHHHHHHHHHH
Confidence                        666666666666777664   46889999999999999999999999999999998 79999999999


Q ss_pred             HHHHHHHhhhhcCCChhHHHHHHHHHHHHHhccc
Q psy12150        422 EKLAECNARLQDGASEYIQILDLGSIVIKANKTA  455 (456)
Q Consensus       422 ~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~~~~~  455 (456)
                      +.++-+++|+++|.++.+|+.+|++.++..-..+
T Consensus       297 keig~thmrI~eGv~s~LQl~glla~l~~~~~k~  330 (333)
T KOG0991|consen  297 KEIGLTHMRILEGVNSLLQLSGLLAKLCKVGEKA  330 (333)
T ss_pred             HHHhhHHhHHHhhHhHHHHHHHHHHHHHHhcccc
Confidence            9999999999999999999999999999885443

>KOG0989|consensus

Probab=100.00  E-value=3.4e-50  Score=368.11  Aligned_cols=322  Identities=47%  Similarity=0.696  Sum_probs=293.5

Q ss_pred             CCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC-CccccceEEeeCCCCc
Q psy12150         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDR  108 (456)
Q Consensus        30 ~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~-~~~~~~~~e~n~~~~~  108 (456)
                      +..+.|.|||||++|++++||+.++..|++.+.+...|+||||||||||||++++++++++++ +..+..+.+.|+++.+
T Consensus        21 p~~~swteKYrPkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSder  100 (346)
T KOG0989|consen   21 PKHRSWTEKYRPKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDER  100 (346)
T ss_pred             CCccchHHHhCCCcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccc
Confidence            356779999999999999999999999999999988889999999999999999999999998 5567788999999999


Q ss_pred             ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCc
Q psy12150        109 GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRC  188 (456)
Q Consensus       109 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~  188 (456)
                      |...+++++..|+..........+.||+.++|+|+||+|.|+.+++.+|++.||+++.+++||++||+..+++.++.|||
T Consensus       101 Gisvvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC  180 (346)
T KOG0989|consen  101 GISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRC  180 (346)
T ss_pred             cccchhhhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhH
Confidence            99999999999998877766778889999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC-HHHHHHHhCCCCHHH
Q psy12150        189 SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV-NEDVLEVTGVIPKPW  267 (456)
Q Consensus       189 ~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It-~~~v~~~~~~~~~~~  267 (456)
                      +.+.|+++..+.+...|+.+|.+||+++++++++.|+..++||+|+++..||.++.  .++.|| .-.+..+.+..+++.
T Consensus       181 ~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S~GdLR~Ait~Lqsls~--~gk~It~~~~~e~~~GvVp~~~  258 (346)
T KOG0989|consen  181 QKFRFKKLKDEDIVDRLEKIASKEGVDIDDDALKLIAKISDGDLRRAITTLQSLSL--LGKRITTSLVNEELAGVVPDEK  258 (346)
T ss_pred             HHhcCCCcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCcHHHHHHHHHHhhc--cCcccchHHHHHHHhccCCHHH
Confidence            99999999999999999999999999999999999999999999999999999987  567888 555555666888877


Q ss_pred             HHHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhc
Q psy12150        268 IEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLK  347 (456)
Q Consensus       268 i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~  347 (456)
                      +.++++.                                                                         
T Consensus       259 l~~lle~-------------------------------------------------------------------------  265 (346)
T KOG0989|consen  259 LLDLLEL-------------------------------------------------------------------------  265 (346)
T ss_pred             HHHHHHH-------------------------------------------------------------------------
Confidence            7777665                                                                         


Q ss_pred             CCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy12150        348 GGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAEC  427 (456)
Q Consensus       348 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~  427 (456)
                                               ...+++......+++++..||+..++++||+.+++....+++.++..+-.++++.
T Consensus       266 -------------------------a~S~d~~~~v~~~Rei~~sg~~~~~lmsQLa~vi~~~~g~~d~~k~~~~~kl~~~  320 (346)
T KOG0989|consen  266 -------------------------ALSADTPNTVKRVREIMRSGYSPLQLMSQLAEVIMDIIGLSDEQKAQISLKLFTR  320 (346)
T ss_pred             -------------------------HHccChHHHHHHHHHHHHhccCHHHHHHHHHHHHHhccccchHHHHHHHHHHHhc
Confidence                                     0135556666688889999999999999999999987678999999999999999


Q ss_pred             HhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        428 NARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       428 ~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      |.|+.+|+++++||..|..+...+
T Consensus       321 ~~~~~dg~~l~~~L~~L~~~~~ql  344 (346)
T KOG0989|consen  321 DKRLEDGEDLELALKDLLEAEKQL  344 (346)
T ss_pred             cchhhcchhHHHHHHHHHHHHHHH
Confidence            999999999999999999988765

>PLN03025 replication factor C subunit; Provisional

Probab=100.00  E-value=3.6e-48  Score=378.82  Aligned_cols=316  Identities=37%  Similarity=0.575  Sum_probs=283.4

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHH
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV  112 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~  112 (456)
                      .||++||||++|++++|+++++..|+.++.+++.+|++||||||+|||++++++++++.+..+...++++|+++..+.+.
T Consensus         1 ~~w~~kyrP~~l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~~   80 (319)
T PLN03025          1 LPWVEKYRPTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGIDV   80 (319)
T ss_pred             CChhhhcCCCCHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHHH
Confidence            48999999999999999999999999999999999999999999999999999999997765556789999999889888


Q ss_pred             HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEE
Q psy12150        113 IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR  192 (456)
Q Consensus       113 i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~  192 (456)
                      +++.+..+........      .+.+++|||||+|.|+...++.|+++++.++.+++||++||...++.++|++||..++
T Consensus        81 vr~~i~~~~~~~~~~~------~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~  154 (319)
T PLN03025         81 VRNKIKMFAQKKVTLP------PGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVR  154 (319)
T ss_pred             HHHHHHHHHhccccCC------CCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhccc
Confidence            8888887765432110      1257899999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHHHH
Q psy12150        193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLL  272 (456)
Q Consensus       193 f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~l~  272 (456)
                      |.+++.+++..+++.+++++|+.+++++++.|++.++||+|.+++.||.+.  .+.+.||.++|.++++...++.++.++
T Consensus       155 f~~l~~~~l~~~L~~i~~~egi~i~~~~l~~i~~~~~gDlR~aln~Lq~~~--~~~~~i~~~~v~~~~~~~~~~~i~~~i  232 (319)
T PLN03025        155 FSRLSDQEILGRLMKVVEAEKVPYVPEGLEAIIFTADGDMRQALNNLQATH--SGFGFVNQENVFKVCDQPHPLHVKNIV  232 (319)
T ss_pred             CCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH--hcCCCCCHHHHHHHcCCCCHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999544  345689999999999999999999988


Q ss_pred             cccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCc
Q psy12150        273 KVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  352 (456)
Q Consensus       273 ~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~  352 (456)
                      ++                                                                              
T Consensus       233 ~~------------------------------------------------------------------------------  234 (319)
T PLN03025        233 RN------------------------------------------------------------------------------  234 (319)
T ss_pred             HH------------------------------------------------------------------------------
Confidence            87                                                                              


Q ss_pred             ccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhh
Q psy12150        353 VNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQ  432 (456)
Q Consensus       353 ~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~  432 (456)
                                          +..++++++...+..|+..|+++.+|+..|++++.+. ++++..+.+++..+|++|+||+
T Consensus       235 --------------------~~~~~~~~a~~~l~~ll~~g~~~~~Il~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  293 (319)
T PLN03025        235 --------------------CLKGKFDDACDGLKQLYDLGYSPTDIITTLFRVVKNY-DMPEFLKLEYLREIGFAHMRIC  293 (319)
T ss_pred             --------------------HHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-CCCHHHHHHHHHHHHHHHHHHH
Confidence                                0134566666678888888999999999999999876 7999999999999999999999


Q ss_pred             cCCChhHHHHHHHHHHHHHhccc
Q psy12150        433 DGASEYIQILDLGSIVIKANKTA  455 (456)
Q Consensus       433 ~g~~~~~ql~~l~~~~~~~~~~~  455 (456)
                      .|+++.+||.++++.|+.+.++|
T Consensus       294 ~g~~~~~~l~a~~~~~~~~~~~~  316 (319)
T PLN03025        294 DGVGSLLQLSGLLAKLCLVRETA  316 (319)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999998776

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.9e-41  Score=343.08  Aligned_cols=319  Identities=24%  Similarity=0.323  Sum_probs=279.1

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc----------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM----------------   94 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~----------------   94 (456)
                      -.+|.++|||.+|++++|++.++..|.++++.++.+| ||||||+|+|||++|+.+++.+.+..                
T Consensus         4 ~~~~~~kyRP~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~   83 (451)
T PRK06305          4 YQVSSRKYRPQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKE   83 (451)
T ss_pred             hHHHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHH
Confidence            4689999999999999999999999999999999988 99999999999999999999987631                


Q ss_pred             ----cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceE
Q psy12150         95 ----YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRF  170 (456)
Q Consensus        95 ----~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~l  170 (456)
                          ...+++++++....+.+.+++........+..         +++++|||||+|.|+.+.++.|+++++++++.++|
T Consensus        84 i~~~~~~d~~~i~g~~~~gid~ir~i~~~l~~~~~~---------~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~  154 (451)
T PRK06305         84 ISSGTSLDVLEIDGASHRGIEDIRQINETVLFTPSK---------SRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKF  154 (451)
T ss_pred             HhcCCCCceEEeeccccCCHHHHHHHHHHHHhhhhc---------CCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceE
Confidence                12357778776667777777665544433322         37789999999999999999999999999999999


Q ss_pred             EEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCC
Q psy12150        171 CLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEG  250 (456)
Q Consensus       171 Il~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~  250 (456)
                      |++++.+.++.++|++||..++|.+++++++..|+..+++++|+.+++++++.|+..++||+|.+++++++++.|.+ +.
T Consensus       155 Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~s~gdlr~a~~~Lekl~~~~~-~~  233 (451)
T PRK06305        155 FLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARAAQGSLRDAESLYDYVVGLFP-KS  233 (451)
T ss_pred             EEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-CC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999988754 56


Q ss_pred             CCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHH
Q psy12150        251 IVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALE  323 (456)
Q Consensus       251 It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~  323 (456)
                      |+.++|.++++...++++|+++++   +++++|+.++++|+..|++|..++    +|||+++                  
T Consensus       234 It~~~V~~l~~~~~~~~vf~L~~ai~~~d~~~al~~l~~L~~~g~~~~~iL~~L~~~fR~ll------------------  295 (451)
T PRK06305        234 LDPDSVAKALGLLSQDSLYTLDEAITTQNYAQALEPVTDAMNSGVAPAHFLHDLTLFFRNIL------------------  295 (451)
T ss_pred             cCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHH------------------
Confidence            999999999999999999999998   899999999999999999998865    7888877                  


Q ss_pred             HHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        324 TLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFH  403 (456)
Q Consensus       324 ~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~  403 (456)
                                                                                  .++..       .    .+.
T Consensus       296 ------------------------------------------------------------~vk~~-------~----~~~  304 (451)
T PRK06305        296 ------------------------------------------------------------LKQYN-------K----QLS  304 (451)
T ss_pred             ------------------------------------------------------------HHhhh-------h----HHH
Confidence                                                                        22210       0    122


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHHh
Q psy12150        404 DIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKAN  452 (456)
Q Consensus       404 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~~  452 (456)
                      +..   ..++...+.+++..++++|++|++|.++++++..++..++.++
T Consensus       305 ~~a---~~~s~~~L~~ii~~l~e~d~~lk~~~~~k~~lE~lll~l~~~~  350 (451)
T PRK06305        305 SVA---TKYSSEQLLEIIDFLGESAKHIQLTIFEKTFLETVIIHLIRIY  350 (451)
T ss_pred             HHH---HhCCHHHHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHh
Confidence            222   2689999999999999999999999999999999999999885

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=6.4e-41  Score=340.33  Aligned_cols=310  Identities=27%  Similarity=0.394  Sum_probs=267.3

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc-----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~-----------------   94 (456)
                      .+|.+||||++|++++||++++..|..+++.++++| ||||||+|+|||++++++++.+.+..                 
T Consensus         2 ~~l~~KyRP~~fdeiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~   81 (535)
T PRK08451          2 QALALKYRPKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSAL   81 (535)
T ss_pred             ccHHHHHCCCCHHHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHh
Confidence            589999999999999999999999999999999998 89999999999999999999987532                 


Q ss_pred             --cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEE
Q psy12150         95 --YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (456)
Q Consensus        95 --~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl  172 (456)
                        ....++++++.+..+.+.+++.+......+..         ++++|+||||+|.|+.+++++|+++||++++.++||+
T Consensus        82 ~~~h~dv~eldaas~~gId~IRelie~~~~~P~~---------~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL  152 (535)
T PRK08451         82 ENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSM---------ARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFIL  152 (535)
T ss_pred             hcCCCeEEEeccccccCHHHHHHHHHHHhhCccc---------CCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEE
Confidence              23467888887777888888888665433322         3788999999999999999999999999999999999


Q ss_pred             EecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy12150        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (456)
Q Consensus       173 ~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It  252 (456)
                      +++++.++.+++++||..++|.+++.+++..|+..+++++|+.++++++..|++.++||+|.+++.|++++.|+ ++.||
T Consensus       153 ~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~i~~~Al~~Ia~~s~GdlR~alnlLdqai~~~-~~~It  231 (535)
T PRK08451        153 ATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGNGSLRDTLTLLDQAIIYC-KNAIT  231 (535)
T ss_pred             EECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhc-CCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999886 56899


Q ss_pred             HHHHHHHhCCCCHHHHHHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHH
Q psy12150        253 NEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGD  332 (456)
Q Consensus       253 ~~~v~~~~~~~~~~~i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd  332 (456)
                      .++|.++++...++.+++++++                             +                            
T Consensus       232 ~~~V~~~lg~~~~~~I~~li~a-----------------------------i----------------------------  254 (535)
T PRK08451        232 ESKVADMLGLLDPSKLEDFFQA-----------------------------I----------------------------  254 (535)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHH-----------------------------H----------------------------
Confidence            9999999999999999999887                             0                            


Q ss_pred             HHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc----
Q psy12150        333 MRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS----  408 (456)
Q Consensus       333 ~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~----  408 (456)
                                                               ..++++.+...++.+  .||+..+++..|..++..    
T Consensus       255 -----------------------------------------~~~d~~~a~~~l~~L--~g~~~~~~l~~l~~~l~~~~~~  291 (535)
T PRK08451        255 -----------------------------------------LNQDKEKLFELLKEL--EDYEAEMVLDEMMLFLKEKFLS  291 (535)
T ss_pred             -----------------------------------------HhcCHHHHHHHHHHH--HCCCHHHHHHHHHHHHHHHhhc
Confidence                                                     012233333344444  567777777777666652    


Q ss_pred             -CCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHHh
Q psy12150        409 -ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKAN  452 (456)
Q Consensus       409 -~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~~  452 (456)
                       ...++...+.++++.|++++..+..|+++.+|+..++..++.+.
T Consensus       292 ~~~~~~l~~l~r~~riL~~~k~~l~~g~~~~i~l~~~~~~~~~~~  336 (535)
T PRK08451        292 KDSEFSILLYERFFRILSSAKSLLKEGADDGFVLLLMLFKMKEAL  336 (535)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhc
Confidence             12356677889999999999999999999999999999999864

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.5e-41  Score=347.40  Aligned_cols=330  Identities=18%  Similarity=0.286  Sum_probs=288.3

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY----------------   95 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~----------------   95 (456)
                      ....+||||.+|++++||+.++..|++++.+++.+| |||+||+|+|||++|+.+++.+++...                
T Consensus         4 ~~l~~kyRP~~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~   83 (620)
T PRK14954          4 QVIARKYRPSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGE   83 (620)
T ss_pred             HHHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCcc
Confidence            346799999999999999999999999999999999 999999999999999999999977320                


Q ss_pred             -----------ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc
Q psy12150         96 -----------RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (456)
Q Consensus        96 -----------~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~  164 (456)
                                 ..++.++++....+.+.+++....+...++++         ++|||||||+|.|+.+.++.|+++|+++
T Consensus        84 C~sC~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~---------~~KVvIIdEad~Lt~~a~naLLK~LEeP  154 (620)
T PRK14954         84 CESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKG---------RYRVYIIDEVHMLSTAAFNAFLKTLEEP  154 (620)
T ss_pred             CHHHHHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcC---------CCEEEEEeChhhcCHHHHHHHHHHHhCC
Confidence                       13566777766677888888877776555443         7889999999999999999999999999


Q ss_pred             cCcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy12150        165 TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (456)
Q Consensus       165 ~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~  244 (456)
                      ++.++||++++...++.++|++||..++|.+++.+++..|+..+++++|+.+++++++.|+..++||+|.+++++++++.
T Consensus       155 p~~tv~IL~t~~~~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I~~eal~~La~~s~Gdlr~al~eLeKL~~  234 (620)
T PRK14954        155 PPHAIFIFATTELHKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQGSMRDAQSILDQVIA  234 (620)
T ss_pred             CCCeEEEEEeCChhhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            99999999999899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hh----CCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCH
Q psy12150        245 LK----GGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSD  313 (456)
Q Consensus       245 ~~----~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~  313 (456)
                      |.    .++.||.++|.++++...++++|+++++   ++..++++++++|+..|++|.+|+    +|||+++        
T Consensus       235 y~~~~~~~~~It~~~V~~lv~~~~e~~iF~L~dai~~~d~~~al~~l~~Ll~~ge~p~~iL~lL~~~fRdLL--------  306 (620)
T PRK14954        235 FSVGSEAEKVIAYQGVAELLNYIDDEQFFDVTDAIAENDAVKMLEVARFVIDNGYDEQDFLEKLIEHFRNFL--------  306 (620)
T ss_pred             hccccccCCccCHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHH--------
Confidence            97    2678999999999999999999999999   999999999999999999999865    8999988        


Q ss_pred             HHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCC
Q psy12150        314 KQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAY  393 (456)
Q Consensus       314 ~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~  393 (456)
                                                                                            .++.+...|+
T Consensus       307 ----------------------------------------------------------------------~vK~~~~~~l  316 (620)
T PRK14954        307 ----------------------------------------------------------------------VLYNLRSTRL  316 (620)
T ss_pred             ----------------------------------------------------------------------HHHhcccccc
Confidence                                                                                  3333333333


Q ss_pred             CH--HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHHh
Q psy12150        394 SA--TQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKAN  452 (456)
Q Consensus       394 s~--~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~~  452 (456)
                      ..  ..++..+.+...   .++...+.+++..+.++|++|++..+..+.+..++..++...
T Consensus       317 ~~~~~~v~~~l~~qA~---~fs~~~L~~~l~~l~e~d~~LKtn~n~~l~lEllLlkl~~~~  374 (620)
T PRK14954        317 IERPESVKERYQQSAG---GLTPAAVMQMTDFLMKTQGELKFQFEYQFRFELALLRLIELV  374 (620)
T ss_pred             ccCCHHHHHHHHHHHH---hCCHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHhcc
Confidence            22  233444444444   689999999999999999999999999999999999998763

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.3e-40  Score=342.95  Aligned_cols=263  Identities=25%  Similarity=0.377  Sum_probs=240.8

Q ss_pred             cchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc------------------
Q psy12150         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM------------------   94 (456)
Q Consensus        34 ~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~------------------   94 (456)
                      .|.+||||++|++++||+++++.|++++..++.+| |||+||+|+|||++++++++.+++..                  
T Consensus         2 al~~kyRP~~f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~   81 (584)
T PRK14952          2 ALYRKYRPATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAP   81 (584)
T ss_pred             cHHHHhCCCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhc
Confidence            57799999999999999999999999999999999 89999999999999999999988521                  


Q ss_pred             ---cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         95 ---YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        95 ---~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                         ...+++++++....+++.+++........+..         ++++|+||||+|.|+.+.++.|+++||+++.+++||
T Consensus        82 ~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~---------~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fI  152 (584)
T PRK14952         82 NGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQ---------SRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFI  152 (584)
T ss_pred             ccCCCceEEEeccccccCHHHHHHHHHHHHhhhhc---------CCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEE
Confidence               12467889888778889888876665544433         278899999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      ++++.+.++.++|+|||..++|.+++.+++.+||..+++++|+.++++++..+++.++||+|.++++|++++.+.+++.|
T Consensus       153 L~tte~~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i~~~al~~Ia~~s~GdlR~aln~Ldql~~~~~~~~I  232 (584)
T PRK14952        153 FATTEPEKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVVDDAVYPLVIRAGGGSPRDTLSVLDQLLAGAADTHV  232 (584)
T ss_pred             EEeCChHhhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhccCCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999988767899


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHH
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIV  305 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~  305 (456)
                      |.++|.++++....+.+|+++++   ++..+++.++++++..|+++.+++    ++||+++
T Consensus       233 t~~~v~~llg~~~~~~i~~lv~al~~~d~~~al~~l~~l~~~g~d~~~~l~~L~~~~RdLl  293 (584)
T PRK14952        233 TYQRALGLLGATDVALIDDAVDALAADDAAALFGAIESVIDAGHDPRRFATDLLERFRDLI  293 (584)
T ss_pred             CHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999   899999999999999999998755    7888888

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=100.00  E-value=1.6e-40  Score=326.11  Aligned_cols=313  Identities=41%  Similarity=0.685  Sum_probs=272.8

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~  110 (456)
                      .+.||+++|||.+|++++|++.+++.+..+++.+..++++|+||||+|||++++++++.+.+..+...++++++++..+.
T Consensus         3 ~~~~w~~kyrP~~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~   82 (319)
T PRK00440          3 MEEIWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGI   82 (319)
T ss_pred             ccCccchhhCCCcHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccch
Confidence            46799999999999999999999999999999998889999999999999999999999987766677888888876666


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceE
Q psy12150        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSK  190 (456)
Q Consensus       111 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~  190 (456)
                      +.+.+.+..+........       .++++|+|||++.+..+.++.|+++++.++..+.+|++++...++.+++.+||..
T Consensus        83 ~~~~~~i~~~~~~~~~~~-------~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~  155 (319)
T PRK00440         83 DVIRNKIKEFARTAPVGG-------APFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAV  155 (319)
T ss_pred             HHHHHHHHHHHhcCCCCC-------CCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhhe
Confidence            666666666554432210       2567999999999999899999999999988999999999999999999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHH
Q psy12150        191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEK  270 (456)
Q Consensus       191 i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~  270 (456)
                      ++|.+++.+++..|++.+++++|+.+++++++.+++.++||+|.++++|++++.+  ++.||.++|.++++...++++|+
T Consensus       156 ~~~~~l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~gd~r~~~~~l~~~~~~--~~~it~~~v~~~~~~~~~~~i~~  233 (319)
T PRK00440        156 FRFSPLKKEAVAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAAT--GKEVTEEAVYKITGTARPEEIRE  233 (319)
T ss_pred             eeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHhCCCCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999998875  46899999999999999999999


Q ss_pred             HHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCC
Q psy12150        271 LLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGE  350 (456)
Q Consensus       271 l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~  350 (456)
                      ++++                             +                                              
T Consensus       234 l~~~-----------------------------~----------------------------------------------  238 (319)
T PRK00440        234 MIEL-----------------------------A----------------------------------------------  238 (319)
T ss_pred             HHHH-----------------------------H----------------------------------------------
Confidence            9888                             0                                              


Q ss_pred             CcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHH-HcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy12150        351 GIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLI-LEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNA  429 (456)
Q Consensus       351 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~  429 (456)
                                             ..+++..+...+..|+ .+|++..+|++.++.++.. ..+++..+.+++..++++|+
T Consensus       239 -----------------------~~~~~~~a~~~l~~ll~~~g~~~~~i~~~l~~~~~~-~~~~~~~l~~~~~~~~~~d~  294 (319)
T PRK00440        239 -----------------------LNGDFTEAREKLRDLMIDYGLSGEDIIKQIHREVWS-LDIPEELKVELIDAIGEADF  294 (319)
T ss_pred             -----------------------HcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCHHHHHHHHHHHHHHHH
Confidence                                   0122333333455543 5799999999999887765 37999999999999999999


Q ss_pred             hhhcCCChhHHHHHHHHHHHHH
Q psy12150        430 RLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       430 ~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      ++++|.++.+++..+++.++.+
T Consensus       295 ~~k~g~~~~~~le~~i~~~~~~  316 (319)
T PRK00440        295 RITEGANERIQLEALLAKLALL  316 (319)
T ss_pred             HHHCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999876

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.1e-41  Score=336.32  Aligned_cols=329  Identities=19%  Similarity=0.291  Sum_probs=284.7

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY----------------   95 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~----------------   95 (456)
                      ..+.++|||.+|++++||+.+++.|++++.+++.+| |+|+||||+|||++|+++++.+.+...                
T Consensus         4 ~~l~~k~RP~~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~   83 (397)
T PRK14955          4 QVIARKYRPKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGE   83 (397)
T ss_pred             HHHHHhcCCCcHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCC
Confidence            467899999999999999999999999999999998 999999999999999999999976310                


Q ss_pred             -----------ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc
Q psy12150         96 -----------RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (456)
Q Consensus        96 -----------~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~  164 (456)
                                 ..+++++++....+.+.+++....+...+.++         ++++|||||+|.|+.+.++.|+++++++
T Consensus        84 c~~c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~---------~~kvvIIdea~~l~~~~~~~LLk~LEep  154 (397)
T PRK14955         84 CESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKG---------RYRVYIIDEVHMLSIAAFNAFLKTLEEP  154 (397)
T ss_pred             CHHHHHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcC---------CeEEEEEeChhhCCHHHHHHHHHHHhcC
Confidence                       12566777766667888888776665554443         7889999999999999999999999999


Q ss_pred             cCcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy12150        165 TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (456)
Q Consensus       165 ~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~  244 (456)
                      ++.++||++++...++.+++++||..++|.+++.+++..|+..+++++|+.+++++++.|+..++||+|.++++|+++..
T Consensus       155 ~~~t~~Il~t~~~~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~~s~g~lr~a~~~L~kl~~  234 (397)
T PRK14955        155 PPHAIFIFATTELHKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIA  234 (397)
T ss_pred             CCCeEEEEEeCChHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            99999999998889999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             hh----CCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCH
Q psy12150        245 LK----GGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSD  313 (456)
Q Consensus       245 ~~----~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~  313 (456)
                      |+    .++.||.++|.++++...++++|+++++   ++..+|+.++++|+..+++|..|+    +|||+++        
T Consensus       235 ~~~~~~~~~~It~~~v~~~v~~~~~~~vf~l~~ai~~~~~~~al~~~~~l~~~~~~~~~iL~ll~~~~R~ll--------  306 (397)
T PRK14955        235 FSVESEGEGSIRYDKVAELLNYIDDEHFFAVTDAVADGDAVAMLDVAQFVIRNGYDEQDFLEKLIEHLRNFL--------  306 (397)
T ss_pred             hccccCCCCccCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH--------
Confidence            86    2568999999999999999999999999   999999999999999999998855    8889988        


Q ss_pred             HHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCC
Q psy12150        314 KQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAY  393 (456)
Q Consensus       314 ~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~  393 (456)
                                                                                            .++.+..+|+
T Consensus       307 ----------------------------------------------------------------------~~k~~~~~~~  316 (397)
T PRK14955        307 ----------------------------------------------------------------------VVHNLRSTRL  316 (397)
T ss_pred             ----------------------------------------------------------------------HHHhcccccc
Confidence                                                                                  3443333443


Q ss_pred             CH-HHHH-HHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        394 SA-TQLF-DQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       394 s~-~di~-~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      .. .+.+ ..+....   ..++...+.++++.+.++|+.|+++.+..+-+..++..++..
T Consensus       317 ~~~~~~~~~~~~~~a---~~~s~~~L~~~l~~l~e~d~~lK~~~~~~l~lE~lll~l~~~  373 (397)
T PRK14955        317 VERPDAVRERYERDA---AKFSPEVIMQMTDLLLQTQKELKFQFEYQFRFELALLKLIEI  373 (397)
T ss_pred             ccCCHHHHHHHHHHH---HhCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHhh
Confidence            21 1211 1222222   368999999999999999999999999999999999998876

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1e-40  Score=348.16  Aligned_cols=330  Identities=20%  Similarity=0.369  Sum_probs=283.9

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc-----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~-----------------   94 (456)
                      ..|++||||.+|++++||+.+++.|.++++.++++| ||||||+|+|||++++.+++.+.+..                 
T Consensus         5 ~~~~~kyRP~~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~   84 (614)
T PRK14971          5 IVSARKYRPSTFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAF   84 (614)
T ss_pred             HHHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHH
Confidence            579999999999999999999999999999999999 99999999999999999999987421                 


Q ss_pred             ---cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         95 ---YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        95 ---~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                         ...++.++++.+..+.+.+++.+..+...+..+         ++|||||||++.|+.+.++.|+++||+++.+++||
T Consensus        85 ~~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~---------~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifI  155 (614)
T PRK14971         85 NEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIG---------KYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFI  155 (614)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHhhCcccC---------CcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEE
Confidence               134678888877677888888887765555443         78999999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      ++++.+.++.++|++||..++|.+++.+++..|+..++.++|+.+++++++.|+..++||+|.+++++++++.|++++ |
T Consensus       156 L~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s~gdlr~al~~Lekl~~y~~~~-I  234 (614)
T PRK14971        156 LATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSIFDQVVSFTGGN-I  234 (614)
T ss_pred             EEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCC-c
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999987654 9


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALET  324 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~  324 (456)
                      +.++|.+.+....++++|+++++   ++..+++.++++|+..|++|..|+    +|||+++.....              
T Consensus       235 t~~~V~~~l~~~~~~~iF~L~dai~~~~~~~al~ll~~Ll~~g~~~~~iL~~L~~~fRdlL~~K~~--------------  300 (614)
T PRK14971        235 TYKSVIENLNILDYDYYFRLTDALLAGKVSDSLLLFDEILNKGFDGSHFITGLASHFRDLLVCKDA--------------  300 (614)
T ss_pred             cHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcc--------------
Confidence            99999999999999999999999   899999999999999999998866    899999822100              


Q ss_pred             HHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHH
Q psy12150        325 LVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHD  404 (456)
Q Consensus       325 ~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~  404 (456)
                                      +.                                          ..   .-|+ ..+....+.+
T Consensus       301 ----------------~~------------------------------------------~~---ll~v-~~~~~~~~~~  318 (614)
T PRK14971        301 ----------------AT------------------------------------------LQ---LLEV-GESIRQRYLE  318 (614)
T ss_pred             ----------------cc------------------------------------------cc---cccC-CHHHHHHHHH
Confidence                            00                                          00   0000 0111222222


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        405 IVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       405 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      .   ...++...+.++++.+.++|++|+.|.+..+.+..++..++..
T Consensus       319 q---a~~~s~~~L~~~l~~l~e~d~~lK~~~n~~l~lE~lllkL~~~  362 (614)
T PRK14971        319 Q---AQKCPMSFLYRALKLCNQCDLNYRASKNKRLLVELTLIQLAQL  362 (614)
T ss_pred             H---HHhCCHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHhcc
Confidence            2   2368999999999999999999999999999999999998876

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=6.2e-40  Score=339.81  Aligned_cols=331  Identities=19%  Similarity=0.273  Sum_probs=284.2

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc---------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~---------------   95 (456)
                      -.+|.+||||++|++++||+.+++.|.+++..++.+| +|||||+|+|||++++.+++.+++...               
T Consensus        11 y~~la~KyRP~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~   90 (598)
T PRK09111         11 YRVLARKYRPQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGE   90 (598)
T ss_pred             chhHHhhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccH
Confidence            4789999999999999999999999999999999998 999999999999999999999875321               


Q ss_pred             ---------ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccC
Q psy12150         96 ---------RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK  166 (456)
Q Consensus        96 ---------~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~  166 (456)
                               ..+++++++....+++++++.+......+++         +++|||||||+|.|+.+.++.|+++||++++
T Consensus        91 ~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~---------a~~KVvIIDEad~Ls~~a~naLLKtLEePp~  161 (598)
T PRK09111         91 HCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVS---------ARYKVYIIDEVHMLSTAAFNALLKTLEEPPP  161 (598)
T ss_pred             HHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhc---------CCcEEEEEEChHhCCHHHHHHHHHHHHhCCC
Confidence                     1256788877778889999887766555443         3788999999999999999999999999999


Q ss_pred             cceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy12150        167 STRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (456)
Q Consensus       167 ~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~  246 (456)
                      .++|||+++...++.+.+++||..++|.+++.+++..|+..+++++|+.+++++++.|++.++||+|.++++|++++.+.
T Consensus       162 ~~~fIl~tte~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~Gdlr~al~~Ldkli~~g  241 (598)
T PRK09111        162 HVKFIFATTEIRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVEDEALALIARAAEGSVRDGLSLLDQAIAHG  241 (598)
T ss_pred             CeEEEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhc
Confidence            99999999998899999999999999999999999999999999999999999999999999999999999999988874


Q ss_pred             CCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHH
Q psy12150        247 GGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALF  319 (456)
Q Consensus       247 ~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~  319 (456)
                       .+.||.++|.++++...++.+|+++++   ++..+++.++++++..|++|..++    ++||.++.+..          
T Consensus       242 -~g~It~e~V~~llg~~~~~~if~L~~ai~~gd~~~Al~~l~~l~~~G~~p~~il~~L~~~~r~L~~vK~----------  310 (598)
T PRK09111        242 -AGEVTAEAVRDMLGLADRARVIDLFEALMRGDVAAALAEFRAQYDAGADPVVVLTDLAEFTHLVTRLKI----------  310 (598)
T ss_pred             -CCCcCHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh----------
Confidence             568999999999999999999999998   999999999999999999999866    56666651110          


Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHH-HHcCCCHHHH
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDL-ILEAYSATQL  398 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~g~s~~di  398 (456)
                                                                                       ...+ ..-++.....
T Consensus       311 -----------------------------------------------------------------~~~~a~~~~~~p~~~  325 (598)
T PRK09111        311 -----------------------------------------------------------------VPDAAEDPSLSEAER  325 (598)
T ss_pred             -----------------------------------------------------------------ccchhhcccCCHHHH
Confidence                                                                             0000 0124443322


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        399 FDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       399 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                       ..+.....   .++...+.++++.|.+.++.++++.+..+.+..++..++..
T Consensus       326 -~kl~~~A~---~~s~~~L~r~~q~Ll~~~~~vK~~~n~~lalE~lLlrl~~~  374 (598)
T PRK09111        326 -TRGAEFAK---KLSMRVLSRLWQMLLKGIEEVQGAPRPLAAAEMVLIRLAYA  374 (598)
T ss_pred             -HHHHHHHh---cCCHHHHHHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHhh
Confidence             22333333   67899999999999999999999999999999999998765

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=5e-40  Score=333.86  Aligned_cols=268  Identities=22%  Similarity=0.356  Sum_probs=243.7

Q ss_pred             CCCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc-------------
Q psy12150         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-------------   94 (456)
Q Consensus        29 ~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~-------------   94 (456)
                      ++.-.||.+||||++|++++||+.+++.|...+..++.++ +||+||+|+|||++|+.+++.+++..             
T Consensus         5 ~~~y~~la~kyRP~~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~   84 (507)
T PRK06645          5 SNQYIPFARKYRPSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQ   84 (507)
T ss_pred             cccccchhhhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCC
Confidence            4567899999999999999999999999999999999877 99999999999999999999997631             


Q ss_pred             ----------cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc
Q psy12150         95 ----------YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (456)
Q Consensus        95 ----------~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~  164 (456)
                                ...+++++++.+..+.+++++.+......+..+         +++|+||||+|.|+...++.|+++|+++
T Consensus        85 C~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~---------~~KVvIIDEa~~Ls~~a~naLLk~LEep  155 (507)
T PRK06645         85 CTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQG---------KHKIFIIDEVHMLSKGAFNALLKTLEEP  155 (507)
T ss_pred             ChHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccC---------CcEEEEEEChhhcCHHHHHHHHHHHhhc
Confidence                      113678888888888999998887765554432         7889999999999999999999999999


Q ss_pred             cCcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy12150        165 TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (456)
Q Consensus       165 ~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~  244 (456)
                      ++.++||++++..+++.+++++||..++|.+++.+++..|++.+++++|+.+++++++.|++.++||+|.++++|++++.
T Consensus       156 p~~~vfI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~GslR~al~~Ldkai~  235 (507)
T PRK06645        156 PPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAAS  235 (507)
T ss_pred             CCCEEEEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             hhC--CCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHH
Q psy12150        245 LKG--GEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIV  305 (456)
Q Consensus       245 ~~~--~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~  305 (456)
                      +++  ++.||.++|.++++...++++|+++++   ++..+|+.++++|+..|++|..++    ++||.+.
T Consensus       236 ~~~~~~~~It~~~V~~llg~~~~~~if~L~~ai~~~d~~~Al~~l~~L~~~g~~~~~~l~~l~~~~~~l~  305 (507)
T PRK06645        236 MSAKSDNIISPQVINQMLGLVDSSVIIEFVEYIIHRETEKAINLINKLYGSSVNLEIFIESVSDFIAYLN  305 (507)
T ss_pred             hhccCCCCcCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence            763  457999999999999999999999999   999999999999999999999876    6777666

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.2e-39  Score=325.59  Aligned_cols=332  Identities=20%  Similarity=0.317  Sum_probs=278.9

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCC-------ccccceEEe
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGD-------MYRERILEL  102 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~-------~~~~~~~e~  102 (456)
                      +-++|.+||||.+|++++|++..++.+.++++.+..++ |+||||||+|||++++++++.+.+.       .....++++
T Consensus         3 ~~~~~~~k~rP~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l   82 (367)
T PRK14970          3 NFVVSARKYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFEL   82 (367)
T ss_pred             chHHHHHHHCCCcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEe
Confidence            45799999999999999999999999999999998876 9999999999999999999998652       223456677


Q ss_pred             eCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccc
Q psy12150        103 NASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQ  182 (456)
Q Consensus       103 n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~  182 (456)
                      +.....+.+.+++.+..+...+.+         +++++|||||++.++...++.|++++++++..+++|++++.+.++.+
T Consensus        83 ~~~~~~~~~~i~~l~~~~~~~p~~---------~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~  153 (367)
T PRK14970         83 DAASNNSVDDIRNLIDQVRIPPQT---------GKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIP  153 (367)
T ss_pred             ccccCCCHHHHHHHHHHHhhcccc---------CCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCH
Confidence            766656667777776665444333         26789999999999999999999999999888999999999999999


Q ss_pred             cccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCC
Q psy12150        183 PLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGV  262 (456)
Q Consensus       183 ~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~  262 (456)
                      ++.+||..++|.+++.+++..|+..+++++|+.+++++++.|+..++||+|.+++++++++.|++.+ ||.++|.++++.
T Consensus       154 ~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~i~~~al~~l~~~~~gdlr~~~~~lekl~~y~~~~-it~~~v~~~~~~  232 (367)
T PRK14970        154 TILSRCQIFDFKRITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSIFDRVVTFCGKN-ITRQAVTENLNI  232 (367)
T ss_pred             HHHhcceeEecCCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999999999999999999987654 999999999999


Q ss_pred             CCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHH
Q psy12150        263 IPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRR  335 (456)
Q Consensus       263 ~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~  335 (456)
                      ..++++|+++++   ++..++..++++++..|++|..|+    +|||+++.....                         
T Consensus       233 ~~~~~if~l~~ai~~~~~~~a~~~~~~l~~~~~~~~~il~~l~~~fr~ll~~k~~-------------------------  287 (367)
T PRK14970        233 LDYDTYINVTDLILENKIPELLLAFNEILRKGFDGHHFIAGLASHFRDLMVSKTP-------------------------  287 (367)
T ss_pred             CCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcc-------------------------
Confidence            999999999999   899999999999999999999966    788888821100                         


Q ss_pred             HHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHH
Q psy12150        336 AITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDK  415 (456)
Q Consensus       336 ~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~  415 (456)
                                         .                            .++   .-|.. .+.+..+.+..   ..|+..
T Consensus       288 -------------------~----------------------------~~~---~l~~~-~~~~~~~~~~a---~~~s~~  313 (367)
T PRK14970        288 -------------------A----------------------------TIA---LLEVG-EQAKKRYEVQS---QKVSQS  313 (367)
T ss_pred             -------------------C----------------------------ccc---cccCC-HHHHHHHHHHH---HcCCHH
Confidence                               0                            000   00111 11122222222   378999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        416 QKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       416 ~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      ...+++..+.++|+.++.+.+..+-+.-++..++..
T Consensus       314 ~L~~~l~~l~~~d~~lK~~~~~~l~lE~~l~~l~~~  349 (367)
T PRK14970        314 FLLSGIDIANDCDLKYKLSKNQRLLVELALMQLASI  349 (367)
T ss_pred             HHHHHHHHHHHHHHHHhcCCChhHHHHHHHHHHhhc
Confidence            999999999999999999999999888888887765

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.3e-39  Score=347.38  Aligned_cols=334  Identities=21%  Similarity=0.314  Sum_probs=279.8

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc-----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~-----------------   94 (456)
                      +.|.+||||.+|++|+||+.+++.|++++..++++| |||+||+|+|||++++.+++.+++..                 
T Consensus         3 ~~l~~KyRP~~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~   82 (824)
T PRK07764          3 LALYRRYRPATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALA   82 (824)
T ss_pred             hhHHHHhCCCCHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHH
Confidence            568899999999999999999999999999999999 99999999999999999999998521                 


Q ss_pred             ----cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceE
Q psy12150         95 ----YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRF  170 (456)
Q Consensus        95 ----~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~l  170 (456)
                          ...+++++|..+..+++.+++...........         +.+||+||||+|.|+...++.|+++||+++.+++|
T Consensus        83 ~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~---------~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~f  153 (824)
T PRK07764         83 PGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAE---------SRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKF  153 (824)
T ss_pred             cCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhc---------CCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEE
Confidence                12467888887777888888765544332222         37889999999999999999999999999999999


Q ss_pred             EEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCC
Q psy12150        171 CLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEG  250 (456)
Q Consensus       171 Il~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~  250 (456)
                      ||++++..++.++|++||..++|.+++.+++..||.++|+++|+.++++++..|++.++||+|.++++|++++.+.+.+.
T Consensus       154 Il~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgGdlR~Al~eLEKLia~~~~~~  233 (824)
T PRK07764        154 IFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGGSVRDSLSVLDQLLAGAGPEG  233 (824)
T ss_pred             EEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999998877778


Q ss_pred             CCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHH----HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q psy12150        251 IVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ----LFDQFHDIVMLASSLSDKQKALFKALE  323 (456)
Q Consensus       251 It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~----i~~q~~~l~~~~~~~~~~~~~l~~~~~  323 (456)
                      ||.++|..+++......+++++++   ++..+++.+++.|+..|+++..    |+++||+|+.+......          
T Consensus       234 IT~e~V~allg~~~~~~I~~lidAL~~~D~a~al~~l~~Li~~G~dp~~~L~~LL~~fRDLL~vka~~~~----------  303 (824)
T PRK07764        234 VTYERAVALLGVTDSALIDEAVDALAAGDGAALFGTVDRVIEAGHDPRRFAEDLLERLRDLIVLQAVPDA----------  303 (824)
T ss_pred             CCHHHHHHHhcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCcc----------
Confidence            999999999999999999999998   8999999999999999999876    45888888722211100          


Q ss_pred             HHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        324 TLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFH  403 (456)
Q Consensus       324 ~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~  403 (456)
                                                                                  ...  ...+. ..+.+..|.
T Consensus       304 ------------------------------------------------------------~~~--~l~~~-p~d~~~~L~  320 (824)
T PRK07764        304 ------------------------------------------------------------AER--GLVDA-PADQLDRMR  320 (824)
T ss_pred             ------------------------------------------------------------hhh--hhccC-CHHHHHHHH
Confidence                                                                        000  00111 134444444


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        404 DIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       404 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      ....   .|+...+.++++.+.++...+....+..+.+..||..++.-
T Consensus       321 ~qA~---~~s~~~L~r~ie~l~ea~~~lrgn~nprL~LElLllrLll~  365 (824)
T PRK07764        321 AQAQ---RLGPAELTRAADVVNDGLTEMRGATSPRLLLELLCARMLLP  365 (824)
T ss_pred             HHHH---hCCHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHhh
Confidence            4444   57888888888888888777777788888888888888754

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=5.7e-40  Score=341.88  Aligned_cols=331  Identities=21%  Similarity=0.346  Sum_probs=281.1

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY----------------   95 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~----------------   95 (456)
                      ..|.+||||++|++++|++++++.|.++++.++++| ||||||+|+|||++++.+++.+++...                
T Consensus         4 ~~l~~k~RP~~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~   83 (576)
T PRK14965          4 LVLARKYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEIT   83 (576)
T ss_pred             HHHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHh
Confidence            468899999999999999999999999999999998 999999999999999999999976321                


Q ss_pred             ---ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEE
Q psy12150         96 ---RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (456)
Q Consensus        96 ---~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl  172 (456)
                         ..+++++++....+.+.+++.+......+..         +++||+||||+|.|+.+.++.|+++||+|+++++||+
T Consensus        84 ~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~---------~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl  154 (576)
T PRK14965         84 EGRSVDVFEIDGASNTGVDDIRELRENVKYLPSR---------SRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIF  154 (576)
T ss_pred             cCCCCCeeeeeccCccCHHHHHHHHHHHHhcccc---------CCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEE
Confidence               2357888888778888888877665544333         3788999999999999999999999999999999999


Q ss_pred             EecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy12150        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (456)
Q Consensus       173 ~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It  252 (456)
                      ++++++++.++|++||..++|.+++.+++..|+..+++++|+.++++++..|++.++||+|.++++|+++..|.+ +.||
T Consensus       155 ~t~~~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~~~al~~la~~a~G~lr~al~~Ldqliay~g-~~It  233 (576)
T PRK14965        155 ATTEPHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDGSMRDSLSTLDQVLAFCG-DAVG  233 (576)
T ss_pred             EeCChhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-CCCC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999865 4799


Q ss_pred             HHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy12150        253 NEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALETL  325 (456)
Q Consensus       253 ~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~  325 (456)
                      .++|.++++....+.+++++++   ++..+++.++++++..|+++..++    ++||++++.....+             
T Consensus       234 ~edV~~llG~~~~~~l~~ll~al~~~d~~~al~~l~~l~~~G~~~~~~l~~Ll~~~RdLl~~k~~~~-------------  300 (576)
T PRK14965        234 DDDVAELLGVVDRRLLLDISAAVFGRDTRALLEIVERVDEFGYNMRQFCQELIDHLRNLVVLRAVGE-------------  300 (576)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhcCc-------------
Confidence            9999999999999999999998   899999999999999999998755    77787772221100             


Q ss_pred             HhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy12150        326 VETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDI  405 (456)
Q Consensus       326 ~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~  405 (456)
                                                                                 ...+.  ++.. +-+..+.+.
T Consensus       301 -----------------------------------------------------------~~~~l--~~~~-~~~~~~~~~  318 (576)
T PRK14965        301 -----------------------------------------------------------PGDLL--DLSE-AELAELRAQ  318 (576)
T ss_pred             -----------------------------------------------------------hhhhc--cCCH-HHHHHHHHH
Confidence                                                                       00000  1111 112222222


Q ss_pred             HhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        406 VMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       406 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      ..   .++...+..++..+.++++.|+.+.+..+-+..++..++..
T Consensus       319 A~---~~s~~~L~~~l~~l~~~~~~lk~~~~~~l~lE~lllkl~~~  361 (576)
T PRK14965        319 AA---AADAADLQRHLTLLLRAEGEMAHASFPRLVLEMALLKMATL  361 (576)
T ss_pred             HH---cCCHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHhhc
Confidence            22   68899999999999999999999999999998888888763

>KOG0990|consensus

Probab=100.00  E-value=1.2e-40  Score=306.90  Aligned_cols=322  Identities=33%  Similarity=0.419  Sum_probs=280.1

Q ss_pred             CCCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC-CccccceEEeeCCCC
Q psy12150         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDD  107 (456)
Q Consensus        29 ~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~-~~~~~~~~e~n~~~~  107 (456)
                      ...++||.++|||.++.++++++++...+.++...++.||.|+|||||+|||+.+.+.++.+.+ ......+.++|+++.
T Consensus        25 ~~~~~pwvekyrP~~l~dv~~~~ei~st~~~~~~~~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaSd~  104 (360)
T KOG0990|consen   25 PQYPQPWVEKYRPPFLGIVIKQEPIWSTENRYSGMPGLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNASDD  104 (360)
T ss_pred             cccCCCCccCCCCchhhhHhcCCchhhHHHHhccCCCCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhccCc
Confidence            4567999999999999999999999999999999999999999999999999999999999987 444456889999999


Q ss_pred             cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCC
Q psy12150        108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSR  187 (456)
Q Consensus       108 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r  187 (456)
                      ++.+.+++.+..+...........   .+.+++||+||+|.++.++|++|++.++++..+++|++++|++.++.+++++|
T Consensus       105 rgid~vr~qi~~fast~~~~~fst---~~~fKlvILDEADaMT~~AQnALRRviek~t~n~rF~ii~n~~~ki~pa~qsR  181 (360)
T KOG0990|consen  105 RGIDPVRQQIHLFASTQQPTTYST---HAAFKLVILDEADAMTRDAQNALRRVIEKYTANTRFATISNPPQKIHPAQQSR  181 (360)
T ss_pred             cCCcchHHHHHHHHhhccceeccc---cCceeEEEecchhHhhHHHHHHHHHHHHHhccceEEEEeccChhhcCchhhcc
Confidence            999999998888776543211000   12678999999999999999999999999999999999999999999999999


Q ss_pred             ceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHH
Q psy12150        188 CSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPW  267 (456)
Q Consensus       188 ~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~  267 (456)
                      |..+.|.|++..+....+..+++.+....+++....+++.+.||+|.++|.|+....+.+  .+++              
T Consensus       182 ctrfrf~pl~~~~~~~r~shi~e~e~~~~~~~~~~a~~r~s~gDmr~a~n~Lqs~~~~~~--~~~e--------------  245 (360)
T KOG0990|consen  182 CTRFRFAPLTMAQQTERQSHIRESEQKETNPEGYSALGRLSVGDMRVALNYLQSILKKVM--ERKE--------------  245 (360)
T ss_pred             cccCCCCCCChhhhhhHHHHHHhcchhhcCHHHHHHHHHHhHHHHHHHHHHHHHHHHHhC--CCCC--------------
Confidence            999999999999999999999999999999998888888888888888888887766542  1111              


Q ss_pred             HHHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhc
Q psy12150        268 IEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLK  347 (456)
Q Consensus       268 i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~  347 (456)
                                                                                                      
T Consensus       246 --------------------------------------------------------------------------------  245 (360)
T KOG0990|consen  246 --------------------------------------------------------------------------------  245 (360)
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             CCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHH-HHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q psy12150        348 GGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDL-ILEAYSATQLFDQFHDIVMSASSLSDKQKALILEK  423 (456)
Q Consensus       348 ~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l-~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~  423 (456)
                        ..+.++.+|.|.|.|.+.+|+++++   ++.|.+++..++.+ ..+|++..|++.++++++... +++...+..|+..
T Consensus       246 --~~~~~~~vy~c~g~p~~~dI~~I~~~il~~~~~~~~~~is~lk~~~gla~~d~i~~l~~~~~~~-~~~~~~~~~I~~~  322 (360)
T KOG0990|consen  246 --LNNPNDLVYQCKGAPQPSDIRQIIEKRMNGEDIELMLDDSELKKPKGLARQDRRAELEQRFAIV-ISKTPVEGHILYQ  322 (360)
T ss_pred             --CCCchhhHHHhcCCCChhHHHHHHHHHhcCchHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHHH-hcchHHHHHHHHh
Confidence              0123445788889988888888886   46778888888887 699999999999999999988 7888999999999


Q ss_pred             HHHHHhhhhcCCChhHHHHHHHHHHHHHh
Q psy12150        424 LAECNARLQDGASEYIQILDLGSIVIKAN  452 (456)
Q Consensus       424 l~~~~~~l~~g~~~~~ql~~l~~~~~~~~  452 (456)
                      ++++|+|++.||++++|+.++|++|....
T Consensus       323 l~~Ie~~ls~g~~~~~ql~aii~~~~~~~  351 (360)
T KOG0990|consen  323 LADIEERLSKGCMQKEQLKAIIKNFAAEL  351 (360)
T ss_pred             HHHHHHHHhcchhHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999998764

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.1e-38  Score=315.75  Aligned_cols=270  Identities=22%  Similarity=0.378  Sum_probs=239.6

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc---------------
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM---------------   94 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~---------------   94 (456)
                      ...||.+||||++|++++||++++..|..++..++.+| |||+||+|+|||++|+.+++.+++..               
T Consensus         4 ~~~~L~~KyRP~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~   83 (484)
T PRK14956          4 THEVLSRKYRPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLE   83 (484)
T ss_pred             CcchhHHHhCCCCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHH
Confidence            45899999999999999999999999999999999988 99999999999999999999998642               


Q ss_pred             ----cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceE
Q psy12150         95 ----YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRF  170 (456)
Q Consensus        95 ----~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~l  170 (456)
                          ...+++++++....+.+.+++....+...+..         +.++|+||||+|.|+.+++++|++.||+++..++|
T Consensus        84 i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~---------g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viF  154 (484)
T PRK14956         84 ITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMG---------GKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVF  154 (484)
T ss_pred             HHccCCccceeechhhcccHHHHHHHHHHHHhhhhc---------CCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEE
Confidence                12257888887777888888776655433322         26789999999999999999999999999999999


Q ss_pred             EEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCC
Q psy12150        171 CLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEG  250 (456)
Q Consensus       171 Il~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~  250 (456)
                      |++++.+.++.++|++||+.++|.+++.+++..+++.++.++|+.++++++..|++.++||+|.+++.|+.+..+. ++.
T Consensus       155 ILaTte~~kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S~Gd~RdAL~lLeq~i~~~-~~~  233 (484)
T PRK14956        155 ILATTEFHKIPETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGSVRDMLSFMEQAIVFT-DSK  233 (484)
T ss_pred             EeecCChhhccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCChHHHHHHHHHHHHHhC-CCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999887664 457


Q ss_pred             CCHHHHHHHhCCCCHHHHHHHHcc---cc-hHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhc
Q psy12150        251 IVNEDVLEVTGVIPKPWIEKLLKV---DS-FQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASS  310 (456)
Q Consensus       251 It~~~v~~~~~~~~~~~i~~l~~~---~~-~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~  310 (456)
                      ||.+.|.++++....+.+++++++   ++ ...++.++..++..|++|..++    ..||+++++...
T Consensus       234 it~~~V~~~lg~~~~~~~~~l~~si~~~d~~~~al~~l~~l~~~G~d~~~~~~~l~~~~r~l~~~~~~  301 (484)
T PRK14956        234 LTGVKIRKMIGYHGIEFLTSFIKSLIDPDNHSKSLEILESLYQEGQDIYKFLWDSIEFTHTLNLIRDS  301 (484)
T ss_pred             cCHHHHHHHhCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhc
Confidence            999999999999999999999888   34 4689999999999999998755    778888866654

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=100.00  E-value=9e-39  Score=318.38  Aligned_cols=327  Identities=24%  Similarity=0.372  Sum_probs=274.9

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY----------------   95 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~----------------   95 (456)
                      .||.+||||.+|++++|++..++.+.+++..++.+| ||||||||+|||++++.+++.+.++..                
T Consensus         2 ~~~~~~~rp~~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~   81 (355)
T TIGR02397         2 QVLARKYRPQTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEIN   81 (355)
T ss_pred             ccHHHHhCCCcHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHh
Confidence            599999999999999999999999999999999988 999999999999999999999875321                


Q ss_pred             ---ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEE
Q psy12150         96 ---RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (456)
Q Consensus        96 ---~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl  172 (456)
                         ..+++++++....+.+.+++.+......+..         +++++|||||+|.++.+.++.|++++++++..+++|+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~~---------~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl  152 (355)
T TIGR02397        82 SGSSLDVIEIDAASNNGVDDIREILDNVKYAPSS---------GKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFIL  152 (355)
T ss_pred             cCCCCCEEEeeccccCCHHHHHHHHHHHhcCccc---------CCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEE
Confidence               2356777776555666666666655433333         2678999999999999999999999999999999999


Q ss_pred             EecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy12150        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (456)
Q Consensus       173 ~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It  252 (456)
                      +++++.++.+++++||..++|.+++.+++..|+..+++++|+.+++++++.|++.++||+|.+.++++++..|.+ +.||
T Consensus       153 ~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g~~~~a~~~lekl~~~~~-~~it  231 (355)
T TIGR02397       153 ATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLLDQLISFGN-GNIT  231 (355)
T ss_pred             EeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCChHHHHHHHHHHHhhcC-CCCC
Confidence            999888889999999999999999999999999999999999999999999999999999999999999998864 5699


Q ss_pred             HHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy12150        253 NEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALETL  325 (456)
Q Consensus       253 ~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~  325 (456)
                      .++|+++++...+.++|+++++   ++..+|..+++++...|++|..++    ++||+++......              
T Consensus       232 ~~~v~~~~~~~~~~~i~~l~~ai~~~~~~~a~~~~~~l~~~~~~~~~il~~l~~~~r~l~~~k~~~--------------  297 (355)
T TIGR02397       232 YEDVNELLGLVDDEKLIELLEAILNKDTAEALKILDEILESGVDPEKFLEDLIEILRDLLLIKKTP--------------  297 (355)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcC--------------
Confidence            9999999999999999999998   899999999999999999998866    7777777221100              


Q ss_pred             HhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy12150        326 VETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDI  405 (456)
Q Consensus       326 ~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~  405 (456)
                                        .                                         +   ..|.. .+....+.+.
T Consensus       298 ------------------~-----------------------------------------~---~~~i~-~~~~~~l~~~  314 (355)
T TIGR02397       298 ------------------S-----------------------------------------N---LLAVL-ESEQEFLKEL  314 (355)
T ss_pred             ------------------c-----------------------------------------c---ccccC-HHHHHHHHHH
Confidence                              0                                         0   00111 1122333333


Q ss_pred             HhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHH
Q psy12150        406 VMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVI  449 (456)
Q Consensus       406 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~  449 (456)
                      ..   .++......+++.+.++|++++.|.+..+-+..++..+|
T Consensus       315 a~---~~s~~~L~~~l~~l~~~~~~lk~~~~~~l~le~l~~~~~  355 (355)
T TIGR02397       315 AL---KLSLEFLLRLLDILLEALKDLRFSNDPRIWLEMTLLRLL  355 (355)
T ss_pred             HH---hCCHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHhC
Confidence            33   678899999999999999999999999999999988764

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.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1e-38  Score=330.89  Aligned_cols=329  Identities=23%  Similarity=0.379  Sum_probs=280.6

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc-----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~-----------------   94 (456)
                      ..|.++|||++|++++||+++++.|++++..++.+| |||+||+|+|||++++.+++.+++..                 
T Consensus         4 ~al~~k~rP~~f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~   83 (559)
T PRK05563          4 QALYRKWRPQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAIT   83 (559)
T ss_pred             HHHHHHhCCCcHHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHh
Confidence            568899999999999999999999999999999999 99999999999999999999987532                 


Q ss_pred             --cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEE
Q psy12150         95 --YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (456)
Q Consensus        95 --~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl  172 (456)
                        ...+++++++....+.+.+++........+..         ++++|+||||+|.|+.+.++.|++++++|+..++||+
T Consensus        84 ~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~---------~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIl  154 (559)
T PRK05563         84 NGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSE---------AKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFIL  154 (559)
T ss_pred             cCCCCCeEEeeccccCCHHHHHHHHHHHhhCccc---------CCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEE
Confidence              12467889888778888888777665544332         3788999999999999999999999999999999999


Q ss_pred             EecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy12150        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (456)
Q Consensus       173 ~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It  252 (456)
                      +++.+.++.+++++||..++|.+++.+++..|+..+++++|+.++++++..|+..++||+|.+++.|+++..|. ++.||
T Consensus       155 att~~~ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i~~~al~~ia~~s~G~~R~al~~Ldq~~~~~-~~~It  233 (559)
T PRK05563        155 ATTEPHKIPATILSRCQRFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEGGMRDALSILDQAISFG-DGKVT  233 (559)
T ss_pred             EeCChhhCcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999998885 66899


Q ss_pred             HHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy12150        253 NEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALETL  325 (456)
Q Consensus       253 ~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~  325 (456)
                      .++|.++++....+.+++++++   ++..+++.++++++..|+++..++    ++||+++......+             
T Consensus       234 ~~~V~~vlg~~~~~~i~~l~~al~~~d~~~al~~l~~l~~~g~d~~~~l~~L~~~~Rdll~~k~~~~-------------  300 (559)
T PRK05563        234 YEDALEVTGSVSQEALDDLVDAIVEGDVAKALKILEELLDEGKDPNRFIEDLIYYLRDLLLVKTSPE-------------  300 (559)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcCc-------------
Confidence            9999999999999999999998   899999999999999999998865    66777761110000             


Q ss_pred             HhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy12150        326 VETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDI  405 (456)
Q Consensus       326 ~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~  405 (456)
                                                                                 ..   .-+.+ .+.+..+.+.
T Consensus       301 -----------------------------------------------------------~~---~~~~~-~~~~~~~~~~  317 (559)
T PRK05563        301 -----------------------------------------------------------LE---ILDES-TENDELFKEL  317 (559)
T ss_pred             -----------------------------------------------------------cc---ccccC-HHHHHHHHHH
Confidence                                                                       00   00011 1112222222


Q ss_pred             HhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHH
Q psy12150        406 VMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  450 (456)
Q Consensus       406 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~  450 (456)
                      ..   .++...+.+++..|.+++.+++.|.+..+.+..++..++.
T Consensus       318 a~---~~s~~~L~~~i~~L~~~~~~lk~~~~~~l~lE~lllkl~~  359 (559)
T PRK05563        318 SE---KLDIERLYRMIDILNDAQQQIKWTNQPRIYLEVALVKLCE  359 (559)
T ss_pred             HH---hCCHHHHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHh
Confidence            22   5788899999999999999999999999999999999887

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=8.8e-39  Score=322.13  Aligned_cols=260  Identities=23%  Similarity=0.384  Sum_probs=237.1

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc-----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~-----------------   94 (456)
                      +.|.+||||++|++++||+.+++.|.+++..++.+| |||+||+|+||||+|+.+++.+++..                 
T Consensus         1 ~~la~KyRP~~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~   80 (491)
T PRK14964          1 MNLALKYRPSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIK   80 (491)
T ss_pred             CChhHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHh
Confidence            458999999999999999999999999999999987 99999999999999999999886421                 


Q ss_pred             --cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEE
Q psy12150         95 --YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (456)
Q Consensus        95 --~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl  172 (456)
                        ...+++++|+++..+.+++++.+......+..+         +++++||||+|.|+.++++.|+++||+|++.++||+
T Consensus        81 ~~~~~Dv~eidaas~~~vddIR~Iie~~~~~P~~~---------~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIl  151 (491)
T PRK14964         81 NSNHPDVIEIDAASNTSVDDIKVILENSCYLPISS---------KFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFIL  151 (491)
T ss_pred             ccCCCCEEEEecccCCCHHHHHHHHHHHHhccccC---------CceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEE
Confidence              234789999998899999999887776555443         788999999999999999999999999999999999


Q ss_pred             EecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy12150        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (456)
Q Consensus       173 ~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It  252 (456)
                      +++...++.+++++||..++|.+++.+++..|+..+++++|+.+++++++.|++.++||+|.++++|++++.|.+ +.||
T Consensus       152 atte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~GslR~alslLdqli~y~~-~~It  230 (491)
T PRK14964        152 ATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLEQAAIYSN-NKIS  230 (491)
T ss_pred             EeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcC-CCCC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999998865 5899


Q ss_pred             HHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHHHH
Q psy12150        253 NEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHD  303 (456)
Q Consensus       253 ~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~~~  303 (456)
                      .++|.++++....+.+|+++++   ++.++|+.++++|+..+ +|..+++.+-.
T Consensus       231 ~e~V~~llg~~~~~~If~L~~aI~~~d~~~Al~~l~~Ll~~g-~~~~i~~~l~~  283 (491)
T PRK14964        231 EKSVRDLLGCVDKHILEDLVEAILLGDAQSALNVFRELCNTS-NPVIILEGMLQ  283 (491)
T ss_pred             HHHHHHHHccCCHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CHHHHHHHHHH
Confidence            9999999999999999999999   99999999999999875 68777754433

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=100.00  E-value=2.1e-38  Score=313.55  Aligned_cols=307  Identities=32%  Similarity=0.509  Sum_probs=253.7

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC--
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG--  109 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~--  109 (456)
                      .++|.+||||++|++++|++.+++.|..++..++.++++|+||||+|||++++++++.+.+..+...++++|+++...  
T Consensus         2 ~~~w~~ky~P~~~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~   81 (337)
T PRK12402          2 APLWTEKYRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQG   81 (337)
T ss_pred             CCchHHhhCCCcHHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcc
Confidence            479999999999999999999999999999999888999999999999999999999987655445667777764210  


Q ss_pred             ------------------------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc
Q psy12150        110 ------------------------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET  165 (456)
Q Consensus       110 ------------------------~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~  165 (456)
                                              .+.+++.+..+.......        +++++|||||++.++.+.++.|.+++++++
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~vlilDe~~~l~~~~~~~L~~~le~~~  153 (337)
T PRK12402         82 KKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLS--------ADYKTILLDNAEALREDAQQALRRIMEQYS  153 (337)
T ss_pred             hhhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCC--------CCCcEEEEeCcccCCHHHHHHHHHHHHhcc
Confidence                                    111222222222111111        256799999999999989999999999988


Q ss_pred             CcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy12150        166 KSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL  245 (456)
Q Consensus       166 ~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~  245 (456)
                      ..+++|++++.+.++.+++++||..+.|.+++.+++..++..++.++|+.+++++++.|+..++||+|.+++.+++++. 
T Consensus       154 ~~~~~Il~~~~~~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~~~gdlr~l~~~l~~~~~-  232 (337)
T PRK12402        154 RTCRFIIATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAAL-  232 (337)
T ss_pred             CCCeEEEEeCChhhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH-
Confidence            8888999998888889999999999999999999999999999999999999999999999999999999999998763 


Q ss_pred             hCCCCCCHHHHHHHhCC-CCHHHHHHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy12150        246 KGGEGIVNEDVLEVTGV-IPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALET  324 (456)
Q Consensus       246 ~~~~~It~~~v~~~~~~-~~~~~i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~  324 (456)
                       +++.||.++|.++++. ..++++|+++++                                                  
T Consensus       233 -~~~~It~~~v~~~~~~~~~~~~i~~l~~a--------------------------------------------------  261 (337)
T PRK12402        233 -AAGEITMEAAYEALGDVGTDEVIESLLDA--------------------------------------------------  261 (337)
T ss_pred             -cCCCCCHHHHHHHhCCCCCHHHHHHHHHH--------------------------------------------------
Confidence             3458999999999997 568899999988                                                  


Q ss_pred             HHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHH-HcCCCHHHHHHHHH
Q psy12150        325 LVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLI-LEAYSATQLFDQFH  403 (456)
Q Consensus       325 ~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~g~s~~di~~~l~  403 (456)
                                                                      +.++++..+...+..+. ++|++..+|++.|+
T Consensus       262 ------------------------------------------------i~~~~~~~a~~~l~~l~~~~g~~~~~i~~~l~  293 (337)
T PRK12402        262 ------------------------------------------------AEAGDFTDARKTLDDLLIDEGLSGGEVLEELL  293 (337)
T ss_pred             ------------------------------------------------HHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence                                                            00223333333455553 78888888988887


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHH
Q psy12150        404 DIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIV  448 (456)
Q Consensus       404 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~  448 (456)
                      .....  .+++..+.+++..++++|+++++|.++.++|..+++.+
T Consensus       294 ~~~~~--~~~~~~l~~~~~~l~~~d~~lk~g~~~~~~le~~i~~~  336 (337)
T PRK12402        294 RVARS--RYRGDNLARLHRLAADADARLTDGANDRIQLEALLAEL  336 (337)
T ss_pred             HHHHH--HCCHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence            76654  48999999999999999999999999999999999875

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.7e-38  Score=322.82  Aligned_cols=260  Identities=26%  Similarity=0.363  Sum_probs=232.5

Q ss_pred             chhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCC------------------cc
Q psy12150         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGD------------------MY   95 (456)
Q Consensus        35 w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~------------------~~   95 (456)
                      +.+||||.+|++++||++++..|.+++..++++| +|||||||+|||++++++++.+.+.                  ..
T Consensus         4 l~~KyRP~~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~   83 (504)
T PRK14963          4 LYQRARPITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGA   83 (504)
T ss_pred             HHHhhCCCCHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCC
Confidence            4499999999999999999999999999999999 7999999999999999999998642                  11


Q ss_pred             ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEec
Q psy12150         96 RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN  175 (456)
Q Consensus        96 ~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~  175 (456)
                      ..+++++++.+..+.+.+++....+...+..         +++++|||||+|.++...++.|++++++++..++||++++
T Consensus        84 h~dv~el~~~~~~~vd~iR~l~~~~~~~p~~---------~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~  154 (504)
T PRK14963         84 HPDVLEIDAASNNSVEDVRDLREKVLLAPLR---------GGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATT  154 (504)
T ss_pred             CCceEEecccccCCHHHHHHHHHHHhhcccc---------CCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcC
Confidence            2357888888777788887765544433332         2678999999999999999999999999999999999999


Q ss_pred             CcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHH
Q psy12150        176 YVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNED  255 (456)
Q Consensus       176 ~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~  255 (456)
                      .+.++.+.+.+||..++|.+++.+++..|+..+++++|+.+++++++.|++.++||+|.++++|+++..+  ++.||.++
T Consensus       155 ~~~kl~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s~GdlR~aln~Lekl~~~--~~~It~~~  232 (504)
T PRK14963        155 EPEKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADGAMRDAESLLERLLAL--GTPVTRKQ  232 (504)
T ss_pred             ChhhCChHHhcceEEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCCCCHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999998775  45899999


Q ss_pred             HHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHH
Q psy12150        256 VLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIV  305 (456)
Q Consensus       256 v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~  305 (456)
                      |.++++...++++|+++++   +++++|+.++++|+..|++|..|+    +|||.++
T Consensus       233 V~~~l~~~~~~~if~Li~al~~~d~~~Al~~l~~Ll~~G~~~~~Il~~L~~~~r~ll  289 (504)
T PRK14963        233 VEEALGLPPQERLRGIAAALAQGDAAEALSGAAQLYRDGFAARTLVEGLLEAFRAAL  289 (504)
T ss_pred             HHHHHCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999   899999999999999999999877    5666555

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4e-38  Score=312.53  Aligned_cols=330  Identities=21%  Similarity=0.271  Sum_probs=272.1

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc---------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~---------------   95 (456)
                      -.||.+||||++|++++||+++++.+++.+..++.+| |+|+||+|+|||++|+++++.+.+...               
T Consensus         3 ~~~l~~kyrP~~~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~   82 (363)
T PRK14961          3 YQILARKWRPQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEI   82 (363)
T ss_pred             cHHHHHHhCCCchhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHH
Confidence            3689999999999999999999999999999999988 899999999999999999999874211               


Q ss_pred             ----ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        96 ----~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                          ..++.++++.+....+.+++.+..+...+..         ++++++||||+|.++...++.|++++++++..++||
T Consensus        83 ~~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~---------~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fI  153 (363)
T PRK14961         83 EKGLCLDLIEIDAASRTKVEEMREILDNIYYSPSK---------SRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFI  153 (363)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHhcCccc---------CCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEE
Confidence                1246667666545667777666554433222         267899999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      +++++..++.+++.+||..++|.+++.+++.+|+..+++++|+.+++++++.++..++||+|.+++.+++++.+ +.+.|
T Consensus       154 l~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~i~~~al~~ia~~s~G~~R~al~~l~~~~~~-~~~~I  232 (363)
T PRK14961        154 LATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLEHAINL-GKGNI  232 (363)
T ss_pred             EEcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCC
Confidence            99998889999999999999999999999999999999999999999999999999999999999999999887 46789


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHH----HHHHHHHhcCCHHHHHHHHHHHH
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQF----HDIVMLASSLSDKQKALFKALET  324 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~----~~l~~~~~~~~~~~~~l~~~~~~  324 (456)
                      |.++|.++++..+++.+|+++++   ++..+++.++++++..|++|.+++..+    |++++....              
T Consensus       233 t~~~v~~~l~~~~~~~i~~l~~ai~~~~~~~~~~~~~~l~~~g~~~~~il~~l~~~~~d~l~~~~~--------------  298 (363)
T PRK14961        233 NIKNVTDMLGLLNEKQSFLLTDALLKKDSKKTMLLLNKISSIGIEWENILIEMLRFLHHISMSQSF--------------  298 (363)
T ss_pred             CHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhc--------------
Confidence            99999999999999999999999   899999999999999999999987544    444411100              


Q ss_pred             HHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHH-HHHHHH
Q psy12150        325 LVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQ-LFDQFH  403 (456)
Q Consensus       325 ~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~d-i~~~l~  403 (456)
                                                           +                     ...     .....| -...+.
T Consensus       299 -------------------------------------~---------------------~~~-----~~~~~~~~~~~~~  315 (363)
T PRK14961        299 -------------------------------------P---------------------KIW-----NTIFIKNYKNQIQ  315 (363)
T ss_pred             -------------------------------------C---------------------chh-----hcccchHHHHHHH
Confidence                                                 0                     000     000111 223333


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        404 DIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       404 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      +...   .++......+++.+-+...+|+...+..+-+..++..+..+
T Consensus       316 ~~~~---~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~e~~l~~~~~~  360 (363)
T PRK14961        316 KIAQ---NNKKTNIQLCYQILLNGRKELKFAPDQKIGVEMTLLRAINA  360 (363)
T ss_pred             HHHH---cCCHHHHHHHHHHHHHHHHHHccCCCchHHHHHHHHHHHhC
Confidence            3333   56788888889999999999999999999998888777654

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.9e-38  Score=327.45  Aligned_cols=328  Identities=21%  Similarity=0.315  Sum_probs=278.4

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc-----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~-----------------   94 (456)
                      ..|.+||||.+|++++||+.++..|+.++++++++| ||||||+|+|||++++++++.+.+..                 
T Consensus         4 ~~l~~kyRP~~f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~   83 (563)
T PRK06647          4 RGTATKRRPRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSID   83 (563)
T ss_pred             HHHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHH
Confidence            468899999999999999999999999999999998 99999999999999999999997631                 


Q ss_pred             --cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEE
Q psy12150         95 --YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (456)
Q Consensus        95 --~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl  172 (456)
                        ...+++++++....+.+.+++........+..         ++++++||||+|.|+..+++.|++++++|++.++||+
T Consensus        84 ~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~---------~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~  154 (563)
T PRK06647         84 NDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPAS---------SRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIF  154 (563)
T ss_pred             cCCCCCeEEecCcccCCHHHHHHHHHHHHhchhc---------CCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEE
Confidence              12356777776656778887766555444433         3788999999999999999999999999999999999


Q ss_pred             EecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy12150        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (456)
Q Consensus       173 ~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It  252 (456)
                      +++...++.++|++||..++|.+++.+++..|+..+++++|+.++++++..|++.++||+|.++++|++++.|.+ +.||
T Consensus       155 ~tte~~kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~id~eAl~lLa~~s~GdlR~alslLdklis~~~-~~It  233 (563)
T PRK06647        155 ATTEVHKLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDAYTLFDQVVSFSD-SDIT  233 (563)
T ss_pred             ecCChHHhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcC-CCCC
Confidence            999889999999999999999999999999999999999999999999999999999999999999999988854 6799


Q ss_pred             HHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy12150        253 NEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALETL  325 (456)
Q Consensus       253 ~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~  325 (456)
                      .++|.++++....+.+++++++   ++..+++.++++++..|++|..++    ++||++++.....++.           
T Consensus       234 ~e~V~~llg~~~~~~if~LidaI~~~D~~~al~~l~~Ll~~G~d~~~iL~~Ll~~fRdLL~vK~G~~~~-----------  302 (563)
T PRK06647        234 LEQIRSKMGLTGDEFLEKLASSILNEDAKELLCVLDSVFLSGVSVEQFLLDCIEFFRELLFLKHGIKNE-----------  302 (563)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhcCCchh-----------
Confidence            9999999999999999999999   999999999999999999998866    7888887222110000           


Q ss_pred             HhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy12150        326 VETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDI  405 (456)
Q Consensus       326 ~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~  405 (456)
                                                                                     ..-|.....+    .+.
T Consensus       303 ---------------------------------------------------------------~~l~~~~e~l----~k~  315 (563)
T PRK06647        303 ---------------------------------------------------------------AFIGIKAERL----PEK  315 (563)
T ss_pred             ---------------------------------------------------------------hhccccHHHH----HHH
Confidence                                                                           0001222221    112


Q ss_pred             HhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        406 VMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       406 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      ..   .++.....+++..|.+++++++...+.++-+..++..++..
T Consensus       316 ~~---~~s~~~L~~~l~~Llea~~~lK~n~~~~l~lE~llikl~~~  358 (563)
T PRK06647        316 LR---EFDLSQIERAISVLLETYRDLQFSVNPRYELEINFSKILRL  358 (563)
T ss_pred             HH---hCCHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhc
Confidence            22   47888899999999999999999999999999999888875

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.8e-38  Score=323.42  Aligned_cols=264  Identities=22%  Similarity=0.332  Sum_probs=239.0

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc---------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~---------------   95 (456)
                      -.+|.+||||++|++++||+++++.|.+++..++.+| |||+||+|+|||++|+.+++.+++...               
T Consensus         3 y~~l~~kyRP~~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i   82 (509)
T PRK14958          3 HQVLARKWRPRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREI   82 (509)
T ss_pred             chhHHHHHCCCCHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHH
Confidence            4689999999999999999999999999999999999 999999999999999999999986321               


Q ss_pred             ----ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        96 ----~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                          ..+++++++.+..+++++++.+......+..         +.++|+||||+|.|+.+.+++|+++||+++++++||
T Consensus        83 ~~g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~~---------~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fI  153 (509)
T PRK14958         83 DEGRFPDLFEVDAASRTKVEDTRELLDNIPYAPTK---------GRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFI  153 (509)
T ss_pred             hcCCCceEEEEcccccCCHHHHHHHHHHHhhcccc---------CCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEE
Confidence                1258899988888899998877765543322         267899999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      ++++++.++.+++++||..++|.+++.+++..|+..+++++|+.+++++++.|++.++||+|.+++.+++++.| +++.|
T Consensus       154 lattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~~~~al~~ia~~s~GslR~al~lLdq~ia~-~~~~I  232 (509)
T PRK14958        154 LATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLLDQSIAY-GNGKV  232 (509)
T ss_pred             EEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHhc-CCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999998887 46789


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHH
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIV  305 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~  305 (456)
                      |.++|.++++...++.+|+++++   ++.++++..+++|+..|++|..++    ..+|.++
T Consensus       233 t~~~V~~~lg~~~~~~i~~ll~al~~~d~~~~l~~~~~l~~~g~~~~~il~~l~~~~~~~~  293 (509)
T PRK14958        233 LIADVKTMLGTIEPLLLFDILEALAAKAGDRLLGCVTRLVEQGVDFSNALADLLSLLHQIA  293 (509)
T ss_pred             CHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999998   899999999999999999997765    4555555

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=9.8e-38  Score=320.95  Aligned_cols=264  Identities=23%  Similarity=0.371  Sum_probs=236.3

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc---------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~---------------   95 (456)
                      -..|.+||||++|++++||+++++.|++++.+++++| |||+||+|+|||++++.+++.+++...               
T Consensus         3 Y~vLarKYRPqtFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I   82 (830)
T PRK07003          3 YQVLARKWRPKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREI   82 (830)
T ss_pred             cHhHHHHhCCCcHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHH
Confidence            3579999999999999999999999999999999998 899999999999999999999976311               


Q ss_pred             ----ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        96 ----~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                          ..+++++|..+..+.+++++.+.........         .++||+||||+|.|+...++.|++.||+++.+++||
T Consensus        83 ~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~---------gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FI  153 (830)
T PRK07003         83 DEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVD---------ARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFI  153 (830)
T ss_pred             hcCCCceEEEecccccccHHHHHHHHHHHHhcccc---------CCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEE
Confidence                1258899998888888888887765433322         267899999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      ++|++..++.++|+|||..|+|.+++.+++..+|++++.++|+.++++++..|++.++||+|.+++.++.+..+. ++.|
T Consensus       154 LaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~id~eAL~lIA~~A~GsmRdALsLLdQAia~~-~~~I  232 (830)
T PRK07003        154 LATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQGSMRDALSLTDQAIAYS-ANEV  232 (830)
T ss_pred             EEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cCCc
Confidence            999999999999999999999999999999999999999999999999999999999999999999998877764 4579


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHH----HHHHHHHHH
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQ----LFDQFHDIV  305 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~----i~~q~~~l~  305 (456)
                      +.+.|..+++....+.+++++++   +++.+++.++++|...|+++..    |++.||+++
T Consensus       233 t~~~V~~~LG~~d~~~i~~ll~aL~~~d~~~~l~~~~~l~~~g~~~~~~l~dLl~~l~~~~  293 (830)
T PRK07003        233 TETAVSGMLGALDQTYMVRLLDALAAGDGPEILAVADEMALRSLSFSTALQDLASLLHRIA  293 (830)
T ss_pred             CHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999   9999999999999999988755    446666655

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1e-37  Score=318.04  Aligned_cols=263  Identities=22%  Similarity=0.386  Sum_probs=236.0

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY----------------   95 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~----------------   95 (456)
                      .+|.+||||++|++++|++.+++.|.+++.+++.+| |||+||+|+|||++|+++++.+++...                
T Consensus         3 ~~LarKyRPktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~   82 (702)
T PRK14960          3 QVLARKYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVN   82 (702)
T ss_pred             hhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHh
Confidence            579999999999999999999999999999999988 899999999999999999999876211                


Q ss_pred             ---ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEE
Q psy12150         96 ---RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (456)
Q Consensus        96 ---~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl  172 (456)
                         ..+++++|+++..+.+.+++.+......+..         ++++|+||||+|.|+...++.|+++|++++..++||+
T Consensus        83 ~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~---------gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FIL  153 (702)
T PRK14960         83 EGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQ---------GRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLF  153 (702)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhhhhhc---------CCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEE
Confidence               1267889998778888888877665443322         2678999999999999999999999999999999999


Q ss_pred             EecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy12150        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (456)
Q Consensus       173 ~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It  252 (456)
                      +++++.++..++++||..++|.+++.+++.+++..+++++|+.++++++..|++.++||+|.+++.++++..+ +++.|+
T Consensus       154 aTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~id~eAL~~IA~~S~GdLRdALnLLDQaIay-g~g~IT  232 (702)
T PRK14960        154 ATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQGSLRDALSLTDQAIAY-GQGAVH  232 (702)
T ss_pred             EECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCcC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998877 467899


Q ss_pred             HHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHH
Q psy12150        253 NEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIV  305 (456)
Q Consensus       253 ~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~  305 (456)
                      .++|..+++....+.+|+++++   ++..+++.+++++...|+++..++    ..+|+++
T Consensus       233 ~edV~~lLG~~d~e~IfdLldAI~k~d~~~al~~L~el~~~g~d~~~~l~~Ll~~lrdll  292 (702)
T PRK14960        233 HQDVKEMLGLIDRTIIYDLILAVHQNQREKVSQLLLQFRYQALDVSLVLDQLISTLHELA  292 (702)
T ss_pred             HHHHHHHhccCCHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999   889999999999999999987655    4445544

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.5e-37  Score=325.31  Aligned_cols=330  Identities=20%  Similarity=0.286  Sum_probs=276.7

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY----------------   95 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~----------------   95 (456)
                      ..|.+||||.+|++++||+.++..|+.++..++.+| ||||||+|+|||++++.+++.+.+...                
T Consensus         4 ~~l~~kyRP~~~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i   83 (585)
T PRK14950          4 QVLYRKWRSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAI   83 (585)
T ss_pred             HHHHHHhCCCCHHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHH
Confidence            458899999999999999999999999999999888 899999999999999999999875321                


Q ss_pred             ----ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        96 ----~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                          ..++++++.....+.+.+++.+..+...+..         ++++||||||+|.|+.+.++.|+++|++++..++||
T Consensus        84 ~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~---------~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~I  154 (585)
T PRK14950         84 AEGSAVDVIEMDAASHTSVDDAREIIERVQFRPAL---------ARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFI  154 (585)
T ss_pred             hcCCCCeEEEEeccccCCHHHHHHHHHHHhhCccc---------CCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEE
Confidence                1246777876667778887766554433332         377899999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      +++++..++.+.+++||..++|.+++..++..++..++.++|+.++++++..|+..++||+|.++++|++++.|. ++.|
T Consensus       155 l~t~~~~kll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~Gdlr~al~~LekL~~y~-~~~I  233 (585)
T PRK14950        155 LATTEVHKVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATTY-GGEI  233 (585)
T ss_pred             EEeCChhhhhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-CCCC
Confidence            999998899999999999999999999999999999999999999999999999999999999999999998874 5689


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALET  324 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~  324 (456)
                      |.++|.++++...+.++|+++++   ++..+++.++++|+..|+++..++    ++||+++.+.....            
T Consensus       234 t~e~V~~ll~~s~~~~vf~Lidal~~~d~~~al~~l~~L~~~g~~~~~il~~L~~~lR~Ll~lk~g~~------------  301 (585)
T PRK14950        234 SLSQVQSLLGISGDEEVKALAEALLAKDLKAALRTLNAVAADGADLRQFTRDLVEYLRQVMLLNSGAD------------  301 (585)
T ss_pred             CHHHHHHHhcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcCc------------
Confidence            99999999999999999999999   999999999999999999998876    56666662110000            


Q ss_pred             HHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHH
Q psy12150        325 LVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHD  404 (456)
Q Consensus       325 ~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~  404 (456)
                                                                                  .. +  -|+.. +-+..+.+
T Consensus       302 ------------------------------------------------------------~~-~--l~i~p-~~~~~~~~  317 (585)
T PRK14950        302 ------------------------------------------------------------RS-L--LDLTA-DEKAALQK  317 (585)
T ss_pred             ------------------------------------------------------------cc-c--ccCCH-HHHHHHHH
Confidence                                                                        00 0  00111 22223333


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        405 IVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       405 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      ...   .++...+..++..++++|+.++.|.+..+.+.-++..++..
T Consensus       318 qa~---~~s~~~L~~~l~~l~~~D~~lK~~~~~~l~lE~~l~~~~~~  361 (585)
T PRK14950        318 VSQ---IANLEALTKWVKAFSQLDFQLRTTSYGQLPLELAVIEALLV  361 (585)
T ss_pred             HHh---cCCHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHhcC
Confidence            333   68999999999999999999999998888898888888764

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=5.3e-38  Score=318.19  Aligned_cols=263  Identities=25%  Similarity=0.414  Sum_probs=235.5

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY----------------   95 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~----------------   95 (456)
                      ..|.++|||++|++++||++++..|...+..++++| ++||||||+|||++|+++++.+.+...                
T Consensus         2 ~~l~~kyRP~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~   81 (472)
T PRK14962          2 EALYRKYRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSID   81 (472)
T ss_pred             chhHHHHCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHh
Confidence            479999999999999999999999999999999988 999999999999999999999876321                


Q ss_pred             ---ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEE
Q psy12150         96 ---RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (456)
Q Consensus        96 ---~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl  172 (456)
                         ...+++++++...+.+.+++........+..         +++++|||||+|.|+.+.++.|+++++++++.+++|+
T Consensus        82 ~g~~~dv~el~aa~~~gid~iR~i~~~~~~~p~~---------~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Il  152 (472)
T PRK14962         82 EGTFMDVIELDAASNRGIDEIRKIRDAVGYRPME---------GKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVL  152 (472)
T ss_pred             cCCCCccEEEeCcccCCHHHHHHHHHHHhhChhc---------CCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEE
Confidence               1257889998778888887644433322222         2678999999999999999999999999999999999


Q ss_pred             EecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy12150        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (456)
Q Consensus       173 ~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It  252 (456)
                      +++.+.++.+++.+||..++|.+++.+++..+++.+++.+|+.+++++++.|++.++||+|.+++.|++++.+++ +.||
T Consensus       153 attn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~-~~It  231 (472)
T PRK14962        153 ATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSE-GKIT  231 (472)
T ss_pred             EeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcC-CCCC
Confidence            998888999999999999999999999999999999999999999999999999999999999999999888754 4599


Q ss_pred             HHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHHHHHH
Q psy12150        253 NEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIV  305 (456)
Q Consensus       253 ~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~  305 (456)
                      .++|.++++..+++.+++++++   ++.++|+.++.+|+..|++|..+++++-.+.
T Consensus       232 ~e~V~~~l~~~~~~~i~~li~si~~~d~~~Al~~l~~ll~~Gedp~~i~r~l~~~~  287 (472)
T PRK14962        232 LETVHEALGLIPIEVVRDYINAIFNGDVKRVFTVLDDVYYSGKDYEVLIQQAIEDL  287 (472)
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            9999999999999999999999   9999999999999999999999998876655

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.8e-37  Score=314.43  Aligned_cols=264  Identities=28%  Similarity=0.445  Sum_probs=236.0

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc------c---------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM------Y---------   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~------~---------   95 (456)
                      -.||.++|||.+|++++||+.++..|+++++.++++| ||||||+|+|||++++.+++.+++..      +         
T Consensus         3 y~~~~~kyRP~~f~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i   82 (486)
T PRK14953          3 YIPFARKYRPKFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEI   82 (486)
T ss_pred             chHHHHhhCCCcHHHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHH
Confidence            3599999999999999999999999999999999998 89999999999999999999987411      0         


Q ss_pred             ----ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        96 ----~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                          ..++++++++...+.+.++.........+..         ++++|+||||+|.|+.+.++.|+++++++++.++||
T Consensus        83 ~~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~---------~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~I  153 (486)
T PRK14953         83 DKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIK---------GKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFI  153 (486)
T ss_pred             hcCCCCcEEEEeCccCCCHHHHHHHHHHHHhCccc---------CCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEE
Confidence                1246778877777788787765555444333         277899999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      ++++...++.+++.+||..++|.+++.+++..|+..+++.+|+.+++++++.|++.++||+|.++++|++++.++ ++.|
T Consensus       154 l~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~id~~al~~La~~s~G~lr~al~~Ldkl~~~~-~~~I  232 (486)
T PRK14953        154 LCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEGGMRDAASLLDQASTYG-EGKV  232 (486)
T ss_pred             EEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-CCCc
Confidence            999988899999999999999999999999999999999999999999999999999999999999999998874 6689


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHH
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIV  305 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~  305 (456)
                      |.++|.++++.....++|+++++   ++..+|+.++++|+..|++|..++    ++||+++
T Consensus       233 t~~~V~~~lg~~~~~~vf~Li~ai~~~d~~~al~~l~~L~~~g~~~~~iL~~L~~~~rdll  293 (486)
T PRK14953        233 TIKVVEEFLGIVSQESVRKFLNLLLESDVDEAIKFLRTLEEKGYNLNKFWKQLEEEIRNIL  293 (486)
T ss_pred             CHHHHHHHhCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999   899999999999999999998876    5666665

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.8e-37  Score=323.33  Aligned_cols=332  Identities=22%  Similarity=0.304  Sum_probs=275.5

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc---------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~---------------   95 (456)
                      -.+|.+||||++|++++||+++++.|++++..++++| |||+||+|+|||++++++++.+++...               
T Consensus         3 Y~~LaeKyRP~tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i   82 (944)
T PRK14949          3 YQVLARKWRPATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEI   82 (944)
T ss_pred             chhHHHHhCCCCHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHH
Confidence            3689999999999999999999999999999999999 899999999999999999999987411               


Q ss_pred             ----ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        96 ----~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                          ...++++++.+..+.+.+++.+..+...+..         +.++|+||||+|.|+.+.++.|++.||+|+.+++||
T Consensus        83 ~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~---------gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFI  153 (944)
T PRK14949         83 AQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSR---------GRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFL  153 (944)
T ss_pred             hcCCCceEEEeccccccCHHHHHHHHHHHHhhhhc---------CCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEE
Confidence                1235777877667788888877766544322         267899999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      ++|++..++.++|++||.+++|.+++.+++..+|..++..+++.+++++++.|+..++|++|.+++.++.+..+ +.+.+
T Consensus       154 LaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI~~edeAL~lIA~~S~Gd~R~ALnLLdQala~-~~~~I  232 (944)
T PRK14949        154 LATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQLPFEAEALTLLAKAANGSMRDALSLTDQAIAF-GGGQV  232 (944)
T ss_pred             EECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999887765 45689


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhc
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVET  328 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~  328 (456)
                      +.+.|.++++......+..+++.   ++...++.++..|+..|+++..|++.+..++                       
T Consensus       233 t~~~V~~llG~iD~~~V~~llksI~~~D~~aaL~~l~~Ll~~G~D~~~ILr~Ll~~l-----------------------  289 (944)
T PRK14949        233 MLTQVQTMLGSIDEQHVIALLKALTDADIGVLMQTCAQVLAFGADAQEVLRSLLELL-----------------------  289 (944)
T ss_pred             cHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH-----------------------
Confidence            99999999999888888888877   7999999999999999999999887765555                       


Q ss_pred             chHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q psy12150        329 SGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMS  408 (456)
Q Consensus       329 ~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~  408 (456)
                           |.++ +.+...                                       ....+..  |+     ..+..+.. 
T Consensus       290 -----RDil-l~k~~~---------------------------------------~~~~l~i--~~-----e~i~~~a~-  316 (944)
T PRK14949        290 -----HQIT-LTQFAP---------------------------------------AAAQQSL--YS-----EQIRAFAE-  316 (944)
T ss_pred             -----HHHH-HHHhcc---------------------------------------chhhccc--hH-----HHHHHHHH-
Confidence                 1111 000000                                       0000000  00     22333333 


Q ss_pred             CCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        409 ASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       409 ~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                        .++...+..+++.+-+...+|....+.++-|..++..++.+
T Consensus       317 --~~s~~~L~~~ie~l~~a~~~L~~n~n~rl~lE~~LLrl~~~  357 (944)
T PRK14949        317 --QLSPEQVQLYYQILLTGRKDLPHAPDPKSGLEMALLRAVAF  357 (944)
T ss_pred             --hCCHHHHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHc
Confidence              57888889999999999999999999999999888887765

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=2.9e-37  Score=320.84  Aligned_cols=328  Identities=24%  Similarity=0.385  Sum_probs=274.9

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc--------------
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY--------------   95 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~--------------   95 (456)
                      .-.+|.++|||.+|++++||+.+++.|++++..++.+| ||||||+|+|||++|+.+++.+.+...              
T Consensus         4 ~y~~l~~KyRP~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~   83 (725)
T PRK07133          4 KYKALYRKYRPKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENV   83 (725)
T ss_pred             chhhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhh
Confidence            34789999999999999999999999999999999988 999999999999999999999876321              


Q ss_pred             --ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEE
Q psy12150         96 --RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLI  173 (456)
Q Consensus        96 --~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~  173 (456)
                        ...++++++....+.+.+++.+..+...+..+         +++|+||||+|.|+.+++++|+++||+|++.++||++
T Consensus        84 ~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g---------~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILa  154 (725)
T PRK07133         84 NNSLDIIEMDAASNNGVDEIRELIENVKNLPTQS---------KYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILA  154 (725)
T ss_pred             cCCCcEEEEeccccCCHHHHHHHHHHHHhchhcC---------CCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEE
Confidence              22456677665567788888777666555443         7889999999999999999999999999999999999


Q ss_pred             ecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCH
Q psy12150        174 CNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN  253 (456)
Q Consensus       174 ~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~  253 (456)
                      ++.+.++.+++++||++++|.+++.+++..||..++.++|+.+++++++.++..++|++|.+++.+++++.|. .+.|+.
T Consensus       155 Tte~~KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS~GslR~AlslLekl~~y~-~~~It~  233 (725)
T PRK07133        155 TTEVHKIPLTILSRVQRFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFG-NNKITL  233 (725)
T ss_pred             cCChhhhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cCCCCH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998885 456999


Q ss_pred             HHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHH----HHHHHHHhcCCHHHHHHHHHHHHHH
Q psy12150        254 EDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQF----HDIVMLASSLSDKQKALFKALETLV  326 (456)
Q Consensus       254 ~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~----~~l~~~~~~~~~~~~~l~~~~~~~~  326 (456)
                      ++|.++++....+.++.++++   ++..+++.++++|+..|++|..+++.+    |++++...                 
T Consensus       234 e~V~ellg~~~~e~If~Ll~aI~~kd~~~aL~~l~~L~~~ged~~~iL~~Ll~~~RDlLl~k~-----------------  296 (725)
T PRK07133        234 KNVEELFGLVSNENLINLLNLLYSKDIKEVLNILNQIKEQGIDPELLLISLINLVKEFIIFNK-----------------  296 (725)
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHh-----------------
Confidence            999999999999999999998   899999999999999999998877544    44441110                 


Q ss_pred             hcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy12150        327 ETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIV  406 (456)
Q Consensus       327 ~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~  406 (456)
                                      +                  |.                     .. +. ...+..+ +..     
T Consensus       297 ----------------~------------------~~---------------------~~-ll-~~~d~~~-l~~-----  313 (725)
T PRK07133        297 ----------------T------------------KD---------------------NS-LL-EYYSEED-LEK-----  313 (725)
T ss_pred             ----------------c------------------Cc---------------------hh-hh-ccCCHHH-HHH-----
Confidence                            0                  00                     00 00 0011111 111     


Q ss_pred             hcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        407 MSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       407 ~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                        . .++......++..+.++..+|....+..+.+..++..++..
T Consensus       314 --~-~~s~~~l~~~le~i~~~~~~L~~n~n~~l~lE~lll~L~~~  355 (725)
T PRK07133        314 --L-KIDDDFAYKFIEILFDLLKDLKISDNPNDTLEILIIKLLAL  355 (725)
T ss_pred             --h-cCCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhc
Confidence              1 35677778888999999999999999999999999888765

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.1e-37  Score=314.35  Aligned_cols=265  Identities=20%  Similarity=0.341  Sum_probs=234.2

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc---------------
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM---------------   94 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~---------------   94 (456)
                      ...||.+||||++|++++|++.++..|.+++++++.+| |||+||+|+|||++|+.+++.+++..               
T Consensus         2 s~~~la~KyRP~sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~   81 (624)
T PRK14959          2 SHASLTARYRPQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRK   81 (624)
T ss_pred             CcchHHHHhCCCCHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHH
Confidence            35799999999999999999999999999999998766 99999999999999999999998631               


Q ss_pred             ----cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceE
Q psy12150         95 ----YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRF  170 (456)
Q Consensus        95 ----~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~l  170 (456)
                          ...+++++++....+++.++.....+...+..         ++++||||||+|.|+.+.++.|+++||+++..++|
T Consensus        82 i~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~---------g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~if  152 (624)
T PRK14959         82 VTQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPME---------GRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTF  152 (624)
T ss_pred             HhcCCCCceEEEecccccCHHHHHHHHHHHHhhhhc---------CCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEE
Confidence                12247788877667788887755444433322         26789999999999999999999999999999999


Q ss_pred             EEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCC
Q psy12150        171 CLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEG  250 (456)
Q Consensus       171 Il~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~  250 (456)
                      |++++.+.++.+.|++||..++|.+++.+++..+|..++.++++.+++++++.|++.++||+|.+++.|++++ +.+.+.
T Consensus       153 ILaTt~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~id~eal~lIA~~s~GdlR~Al~lLeqll-~~g~~~  231 (624)
T PRK14959        153 VLATTEPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLLGQVL-ALGESR  231 (624)
T ss_pred             EEecCChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH-HhcCCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999876 346678


Q ss_pred             CCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHH
Q psy12150        251 IVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIV  305 (456)
Q Consensus       251 It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~  305 (456)
                      ||.++|..+++....+.+++++++   ++...++.++.+|+..++++..++    .+||+++
T Consensus       232 It~d~V~~~lg~~~~e~vfeLl~AL~~~D~~aal~~l~~Ll~~g~d~~~iL~~Ll~~~RdLL  293 (624)
T PRK14959        232 LTIDGARGVLGLAGQELFLRLMEALAAQDCLGVANVVRELLDRGVDMGFFLRELVATWRNLF  293 (624)
T ss_pred             cCHHHHHHHhCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999988   799999999999999999997654    6777777

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1e-36  Score=315.00  Aligned_cols=264  Identities=23%  Similarity=0.390  Sum_probs=238.2

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc----------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM----------------   94 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~----------------   94 (456)
                      -..|.+||||++|++++||+++++.|++++..++.+| |||+||+|+|||++++.+++.+++..                
T Consensus         3 y~vla~KyRP~~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~   82 (618)
T PRK14951          3 YLVLARKYRPRSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQ   82 (618)
T ss_pred             hHHHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccH
Confidence            3579999999999999999999999999999999999 89999999999999999999998631                


Q ss_pred             --------cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccC
Q psy12150         95 --------YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK  166 (456)
Q Consensus        95 --------~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~  166 (456)
                              ...+++++|+.+..+++.+++.+......+..         +.++|+||||+|.|+.+.++.|+++||+++.
T Consensus        83 ~C~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~---------g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~  153 (618)
T PRK14951         83 ACRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQ---------GRFKVFMIDEVHMLTNTAFNAMLKTLEEPPE  153 (618)
T ss_pred             HHHHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCccc---------CCceEEEEEChhhCCHHHHHHHHHhcccCCC
Confidence                    11257888888878888898888765444332         2678999999999999999999999999999


Q ss_pred             cceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy12150        167 STRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (456)
Q Consensus       167 ~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~  246 (456)
                      .++||++|+++.++...+++||..++|.+++.+++..||+.++.++|+.++++++..|++.++||+|.+++.++++..+.
T Consensus       154 ~~~fIL~Ttd~~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~ie~~AL~~La~~s~GslR~al~lLdq~ia~~  233 (618)
T PRK14951        154 YLKFVLATTDPQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLARAARGSMRDALSLTDQAIAFG  233 (618)
T ss_pred             CeEEEEEECCchhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999988874


Q ss_pred             CCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHHHHHH
Q psy12150        247 GGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIV  305 (456)
Q Consensus       247 ~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~  305 (456)
                       ++.||.++|+++++....+.+|+++++   ++...++.++++|+..|+++..+++.+-.++
T Consensus       234 -~~~It~~~V~~~Lg~~~~~~i~~LldaL~~~d~~~al~~l~~l~~~G~~~~~il~~l~~~~  294 (618)
T PRK14951        234 -SGQLQEAAVRQMLGSVDRSHVFRLIDALAQGDGRTVVETADELRLNGLSAASTLEEMAAVL  294 (618)
T ss_pred             -CCCcCHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence             678999999999999999999999998   9999999999999999999998775543333

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.1e-36  Score=313.57  Aligned_cols=263  Identities=24%  Similarity=0.385  Sum_probs=236.9

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc---------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~---------------   95 (456)
                      -.+|.+||||++|++++|++.+++.|++++..++++| |||+||+|+|||++++.+++.+++...               
T Consensus         3 y~vLarKYRP~tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i   82 (709)
T PRK08691          3 YQVLARKWRPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQI   82 (709)
T ss_pred             chhHHHHhCCCCHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHH
Confidence            3679999999999999999999999999999999988 999999999999999999999876321               


Q ss_pred             ----ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        96 ----~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                          ..++++++..+..+.+.+++.+......+..+         +++||||||+|.|+...++.|+++|++++..++||
T Consensus        83 ~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~g---------k~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fI  153 (709)
T PRK08691         83 DAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAG---------KYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFI  153 (709)
T ss_pred             hccCccceEEEeccccCCHHHHHHHHHHHHhhhhhC---------CcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEE
Confidence                12567888888788888888876654443332         67899999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      +++++..++...+++||..+.|.+++.+++..||..+++++|+.++++++..|++.++||+|.+++.|++++.+ +.+.|
T Consensus       154 LaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A~GslRdAlnLLDqaia~-g~g~I  232 (709)
T PRK08691        154 LATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIAL-GSGKV  232 (709)
T ss_pred             EEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCHHHHHHHHHHHHHh-cCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999887 45689


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHHHHH
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDI  304 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l  304 (456)
                      +.++|..+++....+.+|+++++   +++.+++.++++|+..|.++..++..+-.+
T Consensus       233 t~e~V~~lLG~~d~~~If~LldAL~~~d~~~al~~l~~L~~~G~d~~~~l~~L~~~  288 (709)
T PRK08691        233 AENDVRQMIGAVDKQYLYELLTGIINQDGAALLAKAQEMAACAVGFDNALGELAIL  288 (709)
T ss_pred             CHHHHHHHHcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            99999999999999999999999   999999999999999999998877554333

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1e-36  Score=310.03  Aligned_cols=258  Identities=22%  Similarity=0.358  Sum_probs=232.3

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc----------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM----------------   94 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~----------------   94 (456)
                      -.+|.+||||++|++++||+++++.|.+++..++++| |||+||+|+|||++++.+++.+++..                
T Consensus         3 y~vLarKYRPqtFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~   82 (700)
T PRK12323          3 YQVLARKWRPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCR   82 (700)
T ss_pred             chhHHHHhCCCcHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccH
Confidence            4689999999999999999999999999999999999 89999999999999999999998621                


Q ss_pred             --------cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccC
Q psy12150         95 --------YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK  166 (456)
Q Consensus        95 --------~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~  166 (456)
                              ...++++++..+..+++++++.+.........         +++||+||||+|.|+.+.++.|++.||+++.
T Consensus        83 sC~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~---------gr~KViIIDEah~Ls~~AaNALLKTLEEPP~  153 (700)
T PRK12323         83 ACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTA---------GRFKVYMIDEVHMLTNHAFNAMLKTLEEPPE  153 (700)
T ss_pred             HHHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhc---------CCceEEEEEChHhcCHHHHHHHHHhhccCCC
Confidence                    01267889988878899999887766544322         2678999999999999999999999999999


Q ss_pred             cceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy12150        167 STRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (456)
Q Consensus       167 ~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~  246 (456)
                      +++||++|++..++.++|+|||..+.|.+++.+++.++|.+++.++|+.+++++++.|++.++|++|.+++.++.+..+.
T Consensus       154 ~v~FILaTtep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~d~eAL~~IA~~A~Gs~RdALsLLdQaia~~  233 (700)
T PRK12323        154 HVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQAAQGSMRDALSLTDQAIAYS  233 (700)
T ss_pred             CceEEEEeCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999998877664


Q ss_pred             CCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHH
Q psy12150        247 GGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFD  299 (456)
Q Consensus       247 ~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~  299 (456)
                       ++.|+.++|.++++....+.++++++.   ++...++.+++.+...|+++..++.
T Consensus       234 -~~~It~~~V~~~LG~~d~~~i~~Ll~aL~~~d~~~~l~l~~~l~~~G~d~~~~L~  288 (700)
T PRK12323        234 -AGNVSEEAVRGMLGAIDQSYLVRLLDALAAEDGAALLAIADEMAGRSLSFAGALQ  288 (700)
T ss_pred             -cCCcCHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHH
Confidence             457999999999999998889988888   8999999999999999999755443

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=3e-37  Score=314.99  Aligned_cols=270  Identities=22%  Similarity=0.395  Sum_probs=241.9

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc---------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~---------------   95 (456)
                      ..+|.+||||++|++++||+.+++.|.+++..++.+| |||+||+|+|||++|+.+++.+.+..+               
T Consensus         3 ~~~~~~KyRP~~F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i   82 (605)
T PRK05896          3 EITFYRKYRPHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESI   82 (605)
T ss_pred             chhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHH
Confidence            3689999999999999999999999999999999888 999999999999999999999875322               


Q ss_pred             ----ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        96 ----~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                          ..+++++++....+.+.+++.+..+...+..+         +++|+||||+|.|+.++++.|+++|++|++.+++|
T Consensus        83 ~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~---------~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfI  153 (605)
T PRK05896         83 NTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTF---------KYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFI  153 (605)
T ss_pred             HcCCCCceEEeccccccCHHHHHHHHHHHHhchhhC---------CcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEE
Confidence                13567788776678888888777666554432         67899999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      ++++.+.++.+++++||..++|.+++.+++..|+..++.++|+.+++++++.+++.++||+|.+++.+++++.|.++ .|
T Consensus       154 L~Tt~~~KLl~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~Is~eal~~La~lS~GdlR~AlnlLekL~~y~~~-~I  232 (605)
T PRK05896        154 FATTEFQKIPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSILDQLSTFKNS-EI  232 (605)
T ss_pred             EECCChHhhhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHhhcCC-CC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999988653 49


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcC
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSL  311 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~  311 (456)
                      +.++|.++++....+.++.++++   ++..+++.++++|+..|++|..++    ..||++++.....
T Consensus       233 t~e~V~ellg~~~~~~Vf~Ll~AI~~kd~~~al~~l~~Ll~~ge~~~~il~~L~~~~RDlL~~k~~~  299 (605)
T PRK05896        233 DIEDINKTFGLVDNNKKINLIELIQKNDIEELRNLINELESKGINFEAFCRDLINLLIDLLVYQKTK  299 (605)
T ss_pred             CHHHHHHHhccCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhcC
Confidence            99999999999999999999988   799999999999999999998866    5678888765533

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4.4e-36  Score=306.72  Aligned_cols=262  Identities=21%  Similarity=0.364  Sum_probs=236.7

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc---------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~---------------   95 (456)
                      -.||.+||||.+|++++|++.+++.|..++..++.+| |||+||+|+|||++|+.+++.+.+...               
T Consensus         3 y~~La~KyRP~~f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i   82 (546)
T PRK14957          3 YQALARKYRPQSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAI   82 (546)
T ss_pred             chhHHHHHCcCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHH
Confidence            4689999999999999999999999999999999988 999999999999999999999875211               


Q ss_pred             ----ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        96 ----~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                          ..+++++++....+.+.+++.+..+...+..+         +++|+||||+|.|+.+.++.|+++||++++.++||
T Consensus        83 ~~~~~~dlieidaas~~gvd~ir~ii~~~~~~p~~g---------~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fI  153 (546)
T PRK14957         83 NNNSFIDLIEIDAASRTGVEETKEILDNIQYMPSQG---------RYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFI  153 (546)
T ss_pred             hcCCCCceEEeecccccCHHHHHHHHHHHHhhhhcC---------CcEEEEEechhhccHHHHHHHHHHHhcCCCCceEE
Confidence                12567788766678888888877766554433         77899999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      ++|++..++.+++++||..++|.+++.+++..|+..+++++|+.+++++++.|++.++||+|.+++.|++++.|.+ +.|
T Consensus       154 L~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi~~e~~Al~~Ia~~s~GdlR~alnlLek~i~~~~-~~I  232 (546)
T PRK14957        154 LATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAKGSLRDALSLLDQAISFCG-GEL  232 (546)
T ss_pred             EEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-CCC
Confidence            9999999999899999999999999999999999999999999999999999999999999999999999998865 689


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHHHH
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHD  303 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~~~  303 (456)
                      +.++|+++++....+.+|+++++   ++..+++..++++...+.++..++..+..
T Consensus       233 t~~~V~~~l~~~~~~~v~~ll~Al~~~d~~~~l~~~~~l~~~~~~~~~~l~~l~~  287 (546)
T PRK14957        233 KQAQIKQMLGIIDSEEVYSIINAIIDNDPKAILPAIKNLALTESSADAVLDRIAE  287 (546)
T ss_pred             CHHHHHHHHccCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999988999999999   79999999999999999999888876653

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=3.8e-36  Score=311.28  Aligned_cols=330  Identities=20%  Similarity=0.272  Sum_probs=272.0

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc---------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~---------------   95 (456)
                      -.+|.+||||++|++++||+++++.|.+.+..++++| |||+||+|+|||++++.+++.+++...               
T Consensus         3 y~~La~KyRP~~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i   82 (647)
T PRK07994          3 YQVLARKWRPQTFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREI   82 (647)
T ss_pred             chhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHH
Confidence            3689999999999999999999999999999999999 899999999999999999999987321               


Q ss_pred             ----ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        96 ----~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                          ..+++++++.+..+++.+++.+..+...+..         +.++|+||||+|.|+...++.|+++||+|+.+++||
T Consensus        83 ~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~---------g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FI  153 (647)
T PRK07994         83 EQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPAR---------GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFL  153 (647)
T ss_pred             HcCCCCCceeecccccCCHHHHHHHHHHHHhhhhc---------CCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEE
Confidence                1256788887667888888877766544432         277899999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      ++|+++.++.++|+|||..++|.+++.+++..+|..++.++++.++++++..|+..++|++|.+++.++.+..+ +++.|
T Consensus       154 L~Tt~~~kLl~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~~e~~aL~~Ia~~s~Gs~R~Al~lldqaia~-~~~~i  232 (647)
T PRK07994        154 LATTDPQKLPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQIPFEPRALQLLARAADGSMRDALSLTDQAIAS-GNGQV  232 (647)
T ss_pred             EecCCccccchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999887765 45679


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALET  324 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~  324 (456)
                      +.++|..+++....+.+++++++   ++...++.++.+|+..|.++..++    ..||++++....              
T Consensus       233 t~~~v~~~lg~~d~~~~~~ll~al~~~d~~~~l~~~~~l~~~g~d~~~~L~~l~~~lrdil~~q~~--------------  298 (647)
T PRK07994        233 TTDDVSAMLGTLDDDQALSLLEALVEGDGERVMALINQLAERGPDWEGLLVELLELLHRIAMAQLL--------------  298 (647)
T ss_pred             CHHHHHHHHccCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhc--------------
Confidence            99999999998877888888887   789999999999999999987655    455555511100              


Q ss_pred             HHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHH
Q psy12150        325 LVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHD  404 (456)
Q Consensus       325 ~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~  404 (456)
                                         ..                                            .......|....+..
T Consensus       299 -------------------~~--------------------------------------------~~~~~~~d~~~~l~~  315 (647)
T PRK07994        299 -------------------PA--------------------------------------------ALDNDMADIELRLRE  315 (647)
T ss_pred             -------------------cc--------------------------------------------hhcccchhHHHHHHH
Confidence                               00                                            000011122223333


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        405 IVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       405 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      ...   .++......+++.+-+...+|....+..+.+..++..+..+
T Consensus       316 la~---~~s~~~l~~~~q~~~~~~~~L~~n~n~~l~lE~~llr~~~~  359 (647)
T PRK07994        316 LAR---TLPPEDVQLYYQTLLIGRKDLPLAPDRRMGVEMTLLRMLAF  359 (647)
T ss_pred             HHH---hCCHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhc
Confidence            333   46777777788888888899999999999988888877654

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=7.4e-36  Score=311.56  Aligned_cols=331  Identities=23%  Similarity=0.361  Sum_probs=277.6

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc---------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~---------------   95 (456)
                      -.||.++|||++|++++|++.++..|.+++..++.++ ||||||+|+|||++|+++++.+.+...               
T Consensus         3 ~~pl~~kyRP~~f~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~   82 (620)
T PRK14948          3 YEPLHHKYRPQRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCR   82 (620)
T ss_pred             cchHHHHhCCCcHhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHH
Confidence            4799999999999999999999999999999998766 999999999999999999999976321               


Q ss_pred             ------ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcce
Q psy12150         96 ------RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTR  169 (456)
Q Consensus        96 ------~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~  169 (456)
                            ..++++++.....+++.+++.+......+..         ++++||||||+|.|+.+.++.|+++||+++..++
T Consensus        83 ~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~---------~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tv  153 (620)
T PRK14948         83 AIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQ---------ARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVV  153 (620)
T ss_pred             HHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhc---------CCceEEEEECccccCHHHHHHHHHHHhcCCcCeE
Confidence                  1246677776667788888888665544433         2678999999999999999999999999999999


Q ss_pred             EEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCC
Q psy12150        170 FCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGE  249 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~  249 (456)
                      ||++++++.++.++|++||..++|.+++.+++..++..++.++|+.++++++..|++.++||+|.++++|++++.+.  +
T Consensus       154 fIL~t~~~~~llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~is~~al~~La~~s~G~lr~A~~lLeklsL~~--~  231 (620)
T PRK14948        154 FVLATTDPQRVLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIEIEPEALTLVAQRSQGGLRDAESLLDQLSLLP--G  231 (620)
T ss_pred             EEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcc--C
Confidence            99999998899999999999999999999999999999999999999999999999999999999999999988874  4


Q ss_pred             CCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHH
Q psy12150        250 GIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKAL  322 (456)
Q Consensus       250 ~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~  322 (456)
                      .||.++|.++++...++.+++++++   ++..+++.++++|+..|++|..++    ++||+++......+.         
T Consensus       232 ~It~e~V~~lvg~~~e~~i~~Ll~ai~~~d~~~al~~~~~Ll~~g~~p~~iL~~L~~~~RDLL~~K~~~~~---------  302 (620)
T PRK14948        232 PITPEAVWDLLGAVPEQDLLNLLKALASNDPESLLDSCRQLLDRGREPLAILQGLAAFYRDLLLAKTAPNR---------  302 (620)
T ss_pred             CCCHHHHHHHhcCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcccc---------
Confidence            7999999999999999999999888   899999999999999999998866    666666621110000         


Q ss_pred             HHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHH
Q psy12150        323 ETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQF  402 (456)
Q Consensus       323 ~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l  402 (456)
                                                                                     ..+.  +.. .+....+
T Consensus       303 ---------------------------------------------------------------~~l~--~i~-~d~~~~l  316 (620)
T PRK14948        303 ---------------------------------------------------------------PDLV--AVS-QQTWDEL  316 (620)
T ss_pred             ---------------------------------------------------------------hhhh--hcC-HHHHHHH
Confidence                                                                           0000  001 1222333


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        403 HDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       403 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      .....   .++...+..++..|.++|+.++.+.+..+-+..++..+...
T Consensus       317 ~~~A~---~~s~~~L~~~i~~L~eae~~LK~n~nprL~LE~lLl~l~~~  362 (620)
T PRK14948        317 CKLAK---QINLERILQWQQHLKGSEYQLKNSTQPRLWLEVTLLGLLPS  362 (620)
T ss_pred             HHHHh---hCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHhhcc
Confidence            33333   67899999999999999999999999999999999888764

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=9.5e-36  Score=306.79  Aligned_cols=260  Identities=24%  Similarity=0.384  Sum_probs=233.1

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc---------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---------------   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~---------------   95 (456)
                      -.+|.+||||++|++++|++++++.|.+++..++.+| |||+||+|+|||++|+.+++.++++..               
T Consensus         3 ~~~l~~k~rP~~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i   82 (527)
T PRK14969          3 YQVLARKWRPKSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEI   82 (527)
T ss_pred             cHHHHHHhCCCcHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHH
Confidence            3579999999999999999999999999999999999 899999999999999999999976321               


Q ss_pred             ----ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         96 ----RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        96 ----~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                          ..++++++++...+.+.+++.+......+..         ++++|+||||+|.|+.+.++.|+++|++++++++||
T Consensus        83 ~~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~---------~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fI  153 (527)
T PRK14969         83 DSGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTR---------GRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFI  153 (527)
T ss_pred             hcCCCCceeEeeccccCCHHHHHHHHHHHhhCccc---------CCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEE
Confidence                1256778877667888888777665433322         378899999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      ++++++.++.+.+++||..++|.+++.+++..++..+++++|+.++++++..|++.++||+|.+++.++++..+ +++.|
T Consensus       154 L~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~~~~~al~~la~~s~Gslr~al~lldqai~~-~~~~I  232 (527)
T PRK14969        154 LATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLARAAAGSMRDALSLLDQAIAY-GGGTV  232 (527)
T ss_pred             EEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCc
Confidence            99999989988999999999999999999999999999999999999999999999999999999999999888 57789


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHH
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQF  301 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~  301 (456)
                      +.++|.++++...++.+|+++++   ++..+++.++++|...++++..++..+
T Consensus       233 ~~~~v~~~~~~~~~~~i~~ll~al~~~~~~~~l~~~~~l~~~~~~~~~~l~~l  285 (527)
T PRK14969        233 NESEVRAMLGAIDQDYLFALLEALLAQDGAALLAIADAMEERSLSFDAALQDL  285 (527)
T ss_pred             CHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            99999999999999999999998   789999999999999999987766443

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=100.00  E-value=1.1e-35  Score=298.41  Aligned_cols=258  Identities=26%  Similarity=0.419  Sum_probs=239.5

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc-----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------------   94 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~-----------------   94 (456)
                      .++..||||++|++++||+.++..|...+..++..| |+|+||.|+||||+++.+++.+++..                 
T Consensus         4 q~L~rKyRP~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~   83 (515)
T COG2812           4 QVLARKYRPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEIN   83 (515)
T ss_pred             HHHHHHhCcccHHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhh
Confidence            467899999999999999999999999999999999 99999999999999999999998753                 


Q ss_pred             --cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEE
Q psy12150         95 --YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCL  172 (456)
Q Consensus        95 --~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl  172 (456)
                        ...+++|+|+....+++++++..+.....+..         +.+||.||||+|.|+...+++|++.+|+||.+++|||
T Consensus        84 ~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~---------~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIl  154 (515)
T COG2812          84 EGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSE---------GRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFIL  154 (515)
T ss_pred             cCCcccchhhhhhhccChHHHHHHHHHhccCCcc---------ccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEE
Confidence              12467889999999999999988876555443         3789999999999999999999999999999999999


Q ss_pred             EecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCC
Q psy12150        173 ICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  252 (456)
Q Consensus       173 ~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It  252 (456)
                      +|+++.|+...+.|||+.++|+.++.+++...|..++.++++.++++++..+++.++|.+|.+++.|+.+..+.+ +.||
T Consensus       155 ATTe~~Kip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~Gs~RDalslLDq~i~~~~-~~It  233 (515)
T COG2812         155 ATTEPQKIPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSLLDQAIAFGE-GEIT  233 (515)
T ss_pred             ecCCcCcCchhhhhccccccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHHHHHcCCChhhHHHHHHHHHHccC-Cccc
Confidence            999999999999999999999999999999999999999999999999999999999999999999999998765 7899


Q ss_pred             HHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHH
Q psy12150        253 NEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQ  300 (456)
Q Consensus       253 ~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q  300 (456)
                      .+.|..+++....+.+..++.+   +|..+++..+++++..|.+|..++..
T Consensus       234 ~~~v~~~lG~~~~~~~~~~~~~i~~~d~~~~~~~~~~l~~~G~~~~~~l~d  284 (515)
T COG2812         234 LESVRDMLGLTDIEKLLSLLEAILKGDAKEALRLINELIEEGKDPEAFLED  284 (515)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            9999999999999999999998   99999999999999999999886643

>PRK04132 replication factor C small subunit; Provisional

Probab=100.00  E-value=2.4e-33  Score=297.01  Aligned_cols=275  Identities=37%  Similarity=0.589  Sum_probs=244.0

Q ss_pred             EEEEC--CCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCC
Q psy12150         69 FLFYG--PPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA  146 (456)
Q Consensus        69 ~Ll~G--~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~  146 (456)
                      .+..|  |.+.||||+|+++++++.++.+..+++++|+++.++.+.+++.+..+.......       .++++||||||+
T Consensus       567 ~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~~-------~~~~KVvIIDEa  639 (846)
T PRK04132        567 NFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIG-------GASFKIIFLDEA  639 (846)
T ss_pred             hhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCcC-------CCCCEEEEEECc
Confidence            67778  999999999999999998877778999999999999999999998887554321       025689999999


Q ss_pred             CCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q psy12150        147 DSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVE  226 (456)
Q Consensus       147 d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~  226 (456)
                      |.|+.++|++|+++||+|+.++.||++||++.++.++|+|||..+.|.+++.+++...|..+|+++|+.++++++..|+.
T Consensus       640 D~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i~~e~L~~Ia~  719 (846)
T PRK04132        640 DALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILY  719 (846)
T ss_pred             ccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Q psy12150        227 TSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVM  306 (456)
Q Consensus       227 ~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~  306 (456)
                      .++||+|.+++.||.++..  .+.||.++|..+.+...++.++++++.                             +  
T Consensus       720 ~s~GDlR~AIn~Lq~~~~~--~~~It~~~V~~~~~~~~~~~I~~il~~-----------------------------~--  766 (846)
T PRK04132        720 IAEGDMRRAINILQAAAAL--DDKITDENVFLVASRARPEDIREMMLL-----------------------------A--  766 (846)
T ss_pred             HcCCCHHHHHHHHHHHHHh--cCCCCHHHHHHHhCCCCHHHHHHHHHH-----------------------------H--
Confidence            9999999999999987753  357999999999888888777777664                             0  


Q ss_pred             HHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHH
Q psy12150        307 LASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIE  386 (456)
Q Consensus       307 ~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~  386 (456)
                                                                                         ..+++..+...+.
T Consensus       767 -------------------------------------------------------------------l~~~~~~ar~~l~  779 (846)
T PRK04132        767 -------------------------------------------------------------------LKGNFLKAREKLR  779 (846)
T ss_pred             -------------------------------------------------------------------hcCcHHHHHHHHH
Confidence                                                                               0234555555677


Q ss_pred             HHH-HcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        387 DLI-LEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       387 ~l~-~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      .++ ..|++..+++.++++.+... ++++..+.+++..+|++|+|++.|+++.+||.++++.|+.+
T Consensus       780 ell~~~G~~~~~iL~~l~~~l~~~-~i~~~~k~~ll~~lae~e~rl~~G~n~~iqL~a~la~~~~~  844 (846)
T PRK04132        780 EILLKQGLSGEDVLVQMHREVFNL-PIDEPKKVELADKIGEYNFRLVEGANEMIQLEALLAQFTLM  844 (846)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhc-CCCHHHHHHHHHHHHHHhHHHHCCCCHHHHHHHHHHHHHhh
Confidence            765 89999999999999999875 78999999999999999999999999999999999999754

>KOG2035|consensus

Probab=100.00  E-value=5.9e-32  Score=244.23  Aligned_cols=318  Identities=27%  Similarity=0.453  Sum_probs=253.0

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc-----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----------------   95 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~-----------------   95 (456)
                      +.|.++|||++++.+.++++....++.....+.+||+++|||+|+||.|.+.++.+++.+...                 
T Consensus         1 ~LWvdkyrpksl~~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kk   80 (351)
T KOG2035|consen    1 MLWVDKYRPKSLDELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKK   80 (351)
T ss_pred             CcchhhcCcchhhhcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCce
Confidence            479999999999999999999999999998889999999999999999999999999986221                 


Q ss_pred             -------ccceEEeeCCCCcChH--HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccC
Q psy12150         96 -------RERILELNASDDRGIQ--VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK  166 (456)
Q Consensus        96 -------~~~~~e~n~~~~~~~~--~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~  166 (456)
                             ...++|++.+|....+  .+++.+++.++.........    .++++|+|.|+|.|+.++|.+|++.||++..
T Consensus        81 lEistvsS~yHlEitPSDaG~~DRvViQellKevAQt~qie~~~q----r~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~  156 (351)
T KOG2035|consen   81 LEISTVSSNYHLEITPSDAGNYDRVVIQELLKEVAQTQQIETQGQ----RPFKVVVINEADELTRDAQHALRRTMEKYSS  156 (351)
T ss_pred             EEEEEecccceEEeChhhcCcccHHHHHHHHHHHHhhcchhhccc----cceEEEEEechHhhhHHHHHHHHHHHHHHhc
Confidence                   1245678888755443  47788888887754432211    2789999999999999999999999999999


Q ss_pred             cceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy12150        167 STRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (456)
Q Consensus       167 ~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~  246 (456)
                      ++++|++||...++.++++|||..+..+.|+++++...+..+++++|..++.+.+..|++.++||+|+++-.|+.++...
T Consensus       157 ~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp~~~l~rIa~kS~~nLRrAllmlE~~~~~n  236 (351)
T KOG2035|consen  157 NCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLPKELLKRIAEKSNRNLRRALLMLEAVRVNN  236 (351)
T ss_pred             CceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCcHHHHHHHHHHhcccHHHHHHHHHHHHhcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999876532


Q ss_pred             CCCCCCHHHHHHHhCCCCHHHHHHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy12150        247 GGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLV  326 (456)
Q Consensus       247 ~~~~It~~~v~~~~~~~~~~~i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~  326 (456)
                        ..-+..-  ..+....++            ....-+...+....+|..++                            
T Consensus       237 --~~~~a~~--~~i~~~dWe------------~~i~e~a~~i~~eQs~~~L~----------------------------  272 (351)
T KOG2035|consen  237 --EPFTANS--QVIPKPDWE------------IYIQEIARVILKEQSPAKLL----------------------------  272 (351)
T ss_pred             --ccccccC--CCCCCccHH------------HHHHHHHHHHHhccCHHHHH----------------------------
Confidence              1111110  111111111            11111111222222232221                            


Q ss_pred             hcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy12150        327 ETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIV  406 (456)
Q Consensus       327 ~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~  406 (456)
                                                                           +....+.+|+.++..+.-|+++|...+
T Consensus       273 -----------------------------------------------------~vR~~LYeLL~~CIPP~~Ilk~Ll~~L  299 (351)
T KOG2035|consen  273 -----------------------------------------------------EVRGRLYELLSHCIPPNTILKELLEEL  299 (351)
T ss_pred             -----------------------------------------------------HHHHHHHHHHhccCChHHHHHHHHHHH
Confidence                                                                 122246678899999999999996666


Q ss_pred             hcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHHhc
Q psy12150        407 MSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKANK  453 (456)
Q Consensus       407 ~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~~~  453 (456)
                      ..  ..+...+.++++.-|..|+||.-|.-.-+.|.++||.|+.+|.
T Consensus       300 l~--~~d~~~k~~~~~~Aa~yEhRl~lG~KaIfHLEaFVA~fM~iy~  344 (351)
T KOG2035|consen  300 LL--KCDTQLKLEVIQHAAKYEHRLRLGQKAIFHLEAFVAKFMCIYK  344 (351)
T ss_pred             Hh--cCCchhHHHHHHHHHHHHHHHhhcchhhhhHHHHHHHHHHHHH
Confidence            54  6788999999999999999999999999999999999999875

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=100.00  E-value=1.7e-31  Score=261.67  Aligned_cols=299  Identities=27%  Similarity=0.374  Sum_probs=238.0

Q ss_pred             CCCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        29 ~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      .....+|.+||||++|++++|++++.+.+..+++.++.++ ++++||||+|||++++++++.+..     ++.++|+++ 
T Consensus         5 ~~~~~~w~~kyrP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~~-----~~~~i~~~~-   78 (316)
T PHA02544          5 NPNEFMWEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGA-----EVLFVNGSD-   78 (316)
T ss_pred             CCCCCcceeccCCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCc-----cceEeccCc-
Confidence            4567899999999999999999999999999999999888 677999999999999999998743     567888877 


Q ss_pred             cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCc-cHHHHHHHHHHHHhccCcceEEEEecCcccccccccC
Q psy12150        108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM-THAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTS  186 (456)
Q Consensus       108 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l-~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~  186 (456)
                      ...+.+++.+..+.......        +++++|||||+|.+ ..+.++.|..++++++..+.||++++...++.+++++
T Consensus        79 ~~~~~i~~~l~~~~~~~~~~--------~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~s  150 (316)
T PHA02544         79 CRIDFVRNRLTRFASTVSLT--------GGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRS  150 (316)
T ss_pred             ccHHHHHHHHHHHHHhhccc--------CCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHh
Confidence            33555666555554432211        25679999999999 6677888888999998899999999999999999999


Q ss_pred             CceEEEecCCCHHHHHHHHH-------HHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHH
Q psy12150        187 RCSKFRFKPLAENTMLTRLQ-------YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEV  259 (456)
Q Consensus       187 r~~~i~f~~~~~~el~~~l~-------~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~  259 (456)
                      ||..+.|+.|+.++...++.       .++..+|+.++++++..+++.+.||+|.+++.++.++.   ++.|+.+++..+
T Consensus       151 R~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~i~~~al~~l~~~~~~d~r~~l~~l~~~~~---~~~i~~~~l~~~  227 (316)
T PHA02544        151 RCRVIDFGVPTKEEQIEMMKQMIVRCKGILEAEGVEVDMKVLAALVKKNFPDFRRTINELQRYAS---TGKIDAGILSEV  227 (316)
T ss_pred             hceEEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHc---cCCCCHHHHHHh
Confidence            99999999999988775543       44566899999999999999999999999999997653   357888887664


Q ss_pred             hCCCCHHHHHHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHH
Q psy12150        260 TGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITC  339 (456)
Q Consensus       260 ~~~~~~~~i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~  339 (456)
                      .    ...+++++++                                                                 
T Consensus       228 ~----~~~~~~l~~~-----------------------------------------------------------------  238 (316)
T PHA02544        228 T----NSDIDDVVEA-----------------------------------------------------------------  238 (316)
T ss_pred             h----HHHHHHHHHH-----------------------------------------------------------------
Confidence            4    3444555444                                                                 


Q ss_pred             HhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHH
Q psy12150        340 LQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKAL  419 (456)
Q Consensus       340 lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~  419 (456)
                      ++                                 ..+...... +  ....|.+..+++..+++.+..  .+....+.+
T Consensus       239 l~---------------------------------~~d~~~~~~-~--~~~~~~~~~~~l~~~~~~~~~--~~~~~~~~~  280 (316)
T PHA02544        239 LK---------------------------------AKDFKAVRA-L--APNYANDYASFVGKLYDELYP--QVTPPSIIR  280 (316)
T ss_pred             HH---------------------------------cCCHHHHHH-H--HHHhccCHHHHHHHHHHHHHH--hCCHHHHHH
Confidence            00                                 011111111 1  123377888999999888775  467888999


Q ss_pred             HHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        420 ILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       420 ~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      +++.+++.+.++..|.++.+|+.++++.++.-
T Consensus       281 ~~~~l~~~~~~~~~~~~~~l~le~~l~~~~~~  312 (316)
T PHA02544        281 LIEIIGENNQYHGFAADQEIHLLYLLTQLMLE  312 (316)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999998754

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

Probab=100.00  E-value=5.9e-31  Score=250.35  Aligned_cols=254  Identities=24%  Similarity=0.312  Sum_probs=212.6

Q ss_pred             CcchhccCCCCcccccccHHHH---HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVV---SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~---~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~  109 (456)
                      .|+.++.||+++++++||++.+   ..|.+.++.+.+++++|||||||||||+++.++.....     .+..+|+.. .+
T Consensus        12 ~PLA~rmRP~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~-----~f~~~sAv~-~g   85 (436)
T COG2256          12 MPLAERLRPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNA-----AFEALSAVT-SG   85 (436)
T ss_pred             cChHHHhCCCCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCC-----ceEEecccc-cc
Confidence            6999999999999999999998   67899999999999999999999999999999998654     677888775 67


Q ss_pred             hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEe--cCcccccccccCC
Q psy12150        110 IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLIC--NYVSCIIQPLTSR  187 (456)
Q Consensus       110 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~--~~~~kl~~~l~~r  187 (456)
                      +.++++.++........+         .+.|+||||+|++++.+|+.|+..+|+..  +++|-+|  |+...+.++|+||
T Consensus        86 vkdlr~i~e~a~~~~~~g---------r~tiLflDEIHRfnK~QQD~lLp~vE~G~--iilIGATTENPsF~ln~ALlSR  154 (436)
T COG2256          86 VKDLREIIEEARKNRLLG---------RRTILFLDEIHRFNKAQQDALLPHVENGT--IILIGATTENPSFELNPALLSR  154 (436)
T ss_pred             HHHHHHHHHHHHHHHhcC---------CceEEEEehhhhcChhhhhhhhhhhcCCe--EEEEeccCCCCCeeecHHHhhh
Confidence            888888888776554332         45599999999999999999999999753  5555554  3457889999999


Q ss_pred             ceEEEecCCCHHHHHHHHHHHHHH--cCCC-----CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhC-CCCCCHHHHHHH
Q psy12150        188 CSKFRFKPLAENTMLTRLQYICEQ--ESVM-----CDFKALETLVETSGGDMRRAITCLQSCARLKG-GEGIVNEDVLEV  259 (456)
Q Consensus       188 ~~~i~f~~~~~~el~~~l~~~~~~--~~~~-----i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~-~~~It~~~v~~~  259 (456)
                      |.++.|+|++.+++...+++.+..  .|+.     +++++++.|+..++||.|.++|.|+.+...+. ++.++.+++.++
T Consensus       155 ~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l~~~  234 (436)
T COG2256         155 ARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELLEEI  234 (436)
T ss_pred             hheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCcccCHHHHHHH
Confidence            999999999999999999985443  4444     78999999999999999999999999888763 335568999988


Q ss_pred             hCCCC------HHHHHHHHcc-------cchHHHHHHHHHHHHhccCHHHHHHHHHH
Q psy12150        260 TGVIP------KPWIEKLLKV-------DSFQVLEKYIEDLILEAYSATQLFDQFHD  303 (456)
Q Consensus       260 ~~~~~------~~~i~~l~~~-------~~~~~a~~~~~~l~~~~~~~~~i~~q~~~  303 (456)
                      +....      .+...+++.+       .+.+.|+.|+..|++.|++|.-|.|.+-.
T Consensus       235 l~~~~~~~Dk~gD~hYdliSA~hKSvRGSD~dAALyylARmi~~GeDp~yiARRlv~  291 (436)
T COG2256         235 LQRRSARFDKDGDAHYDLISALHKSVRGSDPDAALYYLARMIEAGEDPLYIARRLVR  291 (436)
T ss_pred             HhhhhhccCCCcchHHHHHHHHHHhhccCCcCHHHHHHHHHHhcCCCHHHHHHHHHH
Confidence            87532      2455566555       78899999999999999999998875533

>PRK04195 replication factor C large subunit; Provisional

Probab=99.97  E-value=4.8e-29  Score=256.71  Aligned_cols=251  Identities=30%  Similarity=0.415  Sum_probs=204.3

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcC---C-CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGA---D-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~---~-~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      .++|++||+|+++++++|++..++.+..|+..+   . .+++|||||||+|||++++++++.+.     ..++++|+++.
T Consensus         1 ~~~W~eKyrP~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~-----~~~ielnasd~   75 (482)
T PRK04195          1 MMPWVEKYRPKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG-----WEVIELNASDQ   75 (482)
T ss_pred             CCCchhhcCCCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC-----CCEEEEccccc
Confidence            369999999999999999999999999998743   3 44599999999999999999999974     36899999987


Q ss_pred             cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH----HHHHHHHHHHHhccCcceEEEEecCcccccc-
Q psy12150        108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH----AAQAALRRTMEKETKSTRFCLICNYVSCIIQ-  182 (456)
Q Consensus       108 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~----~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~-  182 (456)
                      +..+.+...+..........    +   .++++|||||+|.++.    ...+.|+++++..  ...+|+++|++..+.. 
T Consensus        76 r~~~~i~~~i~~~~~~~sl~----~---~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~--~~~iIli~n~~~~~~~k  146 (482)
T PRK04195         76 RTADVIERVAGEAATSGSLF----G---ARRKLILLDEVDGIHGNEDRGGARAILELIKKA--KQPIILTANDPYDPSLR  146 (482)
T ss_pred             ccHHHHHHHHHHhhccCccc----C---CCCeEEEEecCcccccccchhHHHHHHHHHHcC--CCCEEEeccCccccchh
Confidence            77777777666554332211    0   1567999999999976    4578888988854  3457778888777665 


Q ss_pred             cccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCC
Q psy12150        183 PLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGV  262 (456)
Q Consensus       183 ~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~  262 (456)
                      .++++|..++|++++..++..+|..++..+|+.+++++++.|++.++||+|.+++.|+.++.  +.+.|+.+++..++..
T Consensus       147 ~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~--~~~~it~~~v~~~~~~  224 (482)
T PRK04195        147 ELRNACLMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAE--GYGKLTLEDVKTLGRR  224 (482)
T ss_pred             hHhccceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhc--CCCCCcHHHHHHhhcC
Confidence            89999999999999999999999999999999999999999999999999999999998432  4568999999999877


Q ss_pred             CCHHHHHHHHcc----cchHHHHHHHHHHHHhccCHHHHHHHH
Q psy12150        263 IPKPWIEKLLKV----DSFQVLEKYIEDLILEAYSATQLFDQF  301 (456)
Q Consensus       263 ~~~~~i~~l~~~----~~~~~a~~~~~~l~~~~~~~~~i~~q~  301 (456)
                      ....++|++++.    ++++++...+.+   ...+|-.++.-+
T Consensus       225 d~~~~if~~l~~i~~~k~~~~a~~~~~~---~~~~~~~i~~~l  264 (482)
T PRK04195        225 DREESIFDALDAVFKARNADQALEASYD---VDEDPDDLIEWI  264 (482)
T ss_pred             CCCCCHHHHHHHHHCCCCHHHHHHHHHc---ccCCHHHHHHHH
Confidence            777888888886    667777665544   455665555433

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.97  E-value=8.5e-29  Score=250.19  Aligned_cols=253  Identities=24%  Similarity=0.309  Sum_probs=205.7

Q ss_pred             cchhccCCCCcccccccHHHHHH---HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh
Q psy12150         34 PWVEKYRPKTIDDVIEQQEVVSV---LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (456)
Q Consensus        34 ~w~eky~P~~~~~ivg~~~~~~~---l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~  110 (456)
                      ||+++|||+++++++|+++.+..   +.+++.++..++++|+||||||||++++.+++.+..     .++.+++.. .+.
T Consensus         1 pla~~~RP~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~-----~~~~l~a~~-~~~   74 (413)
T PRK13342          1 PLAERMRPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDA-----PFEALSAVT-SGV   74 (413)
T ss_pred             ChhhhhCCCCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEeccc-ccH
Confidence            89999999999999999999766   999999998888999999999999999999998643     567777765 345


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEec--CcccccccccCCc
Q psy12150        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN--YVSCIIQPLTSRC  188 (456)
Q Consensus       111 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~--~~~kl~~~l~~r~  188 (456)
                      ..+++.+..+......         ..+++|||||+|.++...++.|+..+++.  .+++|.+++  ....+.+++.+||
T Consensus        75 ~~ir~ii~~~~~~~~~---------g~~~vL~IDEi~~l~~~~q~~LL~~le~~--~iilI~att~n~~~~l~~aL~SR~  143 (413)
T PRK13342         75 KDLREVIEEARQRRSA---------GRRTILFIDEIHRFNKAQQDALLPHVEDG--TITLIGATTENPSFEVNPALLSRA  143 (413)
T ss_pred             HHHHHHHHHHHHhhhc---------CCceEEEEechhhhCHHHHHHHHHHhhcC--cEEEEEeCCCChhhhccHHHhccc
Confidence            5566655554332211         14569999999999999999999999863  344554443  3457889999999


Q ss_pred             eEEEecCCCHHHHHHHHHHHHHHc--CC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCC-
Q psy12150        189 SKFRFKPLAENTMLTRLQYICEQE--SV-MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIP-  264 (456)
Q Consensus       189 ~~i~f~~~~~~el~~~l~~~~~~~--~~-~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~-  264 (456)
                      ..+.|.+++.+++..++...+...  +. .+++++++.|++.++||+|.+++.++.++..  ++.|+.+++.+++.... 
T Consensus       144 ~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~~~~~--~~~It~~~v~~~~~~~~~  221 (413)
T PRK13342        144 QVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLELAALG--VDSITLELLEEALQKRAA  221 (413)
T ss_pred             eeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHc--cCCCCHHHHHHHHhhhhh
Confidence            999999999999999999988753  44 8999999999999999999999999998775  56899999999887421 


Q ss_pred             -----HHHHHHHH----cc---cchHHHHHHHHHHHHhccCHHHHHHHHHHHH
Q psy12150        265 -----KPWIEKLL----KV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIV  305 (456)
Q Consensus       265 -----~~~i~~l~----~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~  305 (456)
                           .+..++++    +.   .+.+.++.++..|+..|++|..|.|++-.+.
T Consensus       222 ~~d~~~~~~~~~isa~~ks~rgsd~~aal~~l~~~l~~G~d~~~i~rrl~~~a  274 (413)
T PRK13342        222 RYDKDGDEHYDLISALHKSIRGSDPDAALYYLARMLEAGEDPLFIARRLVIIA  274 (413)
T ss_pred             ccCCCccHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence                 12333333    32   7889999999999999999999999876666

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

Probab=99.96  E-value=5.1e-28  Score=255.87  Aligned_cols=259  Identities=19%  Similarity=0.277  Sum_probs=206.5

Q ss_pred             CCCcchhccCCCCcccccccHHHH---HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVV---SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~---~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      ...||.++|||++|++++|+++.+   ..+++.+..++.++++||||||||||++++++++.+..     .++.+|+.. 
T Consensus        14 ~~~PLaek~RP~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~~-----~f~~lna~~-   87 (725)
T PRK13341         14 SEAPLADRLRPRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTRA-----HFSSLNAVL-   87 (725)
T ss_pred             ccCChHHhcCCCcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhcC-----cceeehhhh-
Confidence            456999999999999999999998   46888999999989999999999999999999998643     456677664 


Q ss_pred             cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEec--Cccccccccc
Q psy12150        108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN--YVSCIIQPLT  185 (456)
Q Consensus       108 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~--~~~kl~~~l~  185 (456)
                      .+...+++.+..........        ..+.++||||+|.++...++.|+.++++.  .+++|.+++  ....+.+++.
T Consensus        88 ~~i~dir~~i~~a~~~l~~~--------~~~~IL~IDEIh~Ln~~qQdaLL~~lE~g--~IiLI~aTTenp~~~l~~aL~  157 (725)
T PRK13341         88 AGVKDLRAEVDRAKERLERH--------GKRTILFIDEVHRFNKAQQDALLPWVENG--TITLIGATTENPYFEVNKALV  157 (725)
T ss_pred             hhhHHHHHHHHHHHHHhhhc--------CCceEEEEeChhhCCHHHHHHHHHHhcCc--eEEEEEecCCChHhhhhhHhh
Confidence            34445555544432221111        13459999999999999999999999863  344554443  2356788999


Q ss_pred             CCceEEEecCCCHHHHHHHHHHHHH-------HcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhC---CC--CCCH
Q psy12150        186 SRCSKFRFKPLAENTMLTRLQYICE-------QESVMCDFKALETLVETSGGDMRRAITCLQSCARLKG---GE--GIVN  253 (456)
Q Consensus       186 ~r~~~i~f~~~~~~el~~~l~~~~~-------~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~---~~--~It~  253 (456)
                      +||..+.|++++.+++..+++..+.       .+++.+++++++.|++.++||+|.+++.|+.++....   .+  .||.
T Consensus       158 SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~lln~Le~a~~~~~~~~~~~i~It~  237 (725)
T PRK13341        158 SRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALELAVESTPPDEDGLIDITL  237 (725)
T ss_pred             ccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccCCCCceeccH
Confidence            9999999999999999999999887       4678899999999999999999999999999775431   11  3787


Q ss_pred             HHHHHHhC----------CCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHHHHHH
Q psy12150        254 EDVLEVTG----------VIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIV  305 (456)
Q Consensus       254 ~~v~~~~~----------~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~  305 (456)
                      +.+.+++.          ....+.+..+++.   +|.+.|+.++..|+..|++|..|+|++-.+.
T Consensus       238 ~~~~e~l~~~~~~ydk~gd~hyd~Isa~~ksirgsD~daAl~~la~ml~~Gedp~~I~Rrl~~~a  302 (725)
T PRK13341        238 AIAEESIQQRAVLYDKEGDAHFDTISAFIKSLRGSDPDAALYWLARMVEAGEDPRFIFRRMLIAA  302 (725)
T ss_pred             HHHHHHHHHhhhhcccCCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            88777653          3455777777777   8999999999999999999999998765555

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=3.1e-26  Score=223.62  Aligned_cols=298  Identities=15%  Similarity=0.250  Sum_probs=226.5

Q ss_pred             CcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc---ccceEEeeC--CCCcChHHHHHH
Q psy12150         43 TIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY---RERILELNA--SDDRGIQVIRDK  116 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~---~~~~~e~n~--~~~~~~~~i~~~  116 (456)
                      +|++++|++.+++.+.++++.++.+| |+|+||+|+|||++|+.+++.+.+...   ..++.++..  ....+.+.+++.
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir~~   81 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIRNI   81 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHHHH
Confidence            58999999999999999999999999 999999999999999999999876321   123444443  223456778777


Q ss_pred             HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEEecCC
Q psy12150        117 VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPL  196 (456)
Q Consensus       117 l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~  196 (456)
                      +..+...+..         +++||+|||++|.|+.+++++|+++||+|+++++||++++++.++.++++|||..++|.++
T Consensus        82 ~~~~~~~p~~---------~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~  152 (313)
T PRK05564         82 IEEVNKKPYE---------GDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRL  152 (313)
T ss_pred             HHHHhcCccc---------CCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCc
Confidence            7665544443         3788999999999999999999999999999999999999899999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHHHHcc--
Q psy12150        197 AENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV--  274 (456)
Q Consensus       197 ~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~l~~~--  274 (456)
                      +++++..|+...+.    .+++++++.++..++|++..+...+..-.         ...        ..+.++++++.  
T Consensus       153 ~~~~~~~~l~~~~~----~~~~~~~~~l~~~~~g~~~~a~~~~~~~~---------~~~--------~~~~~~~~~~~l~  211 (313)
T PRK05564        153 SKEEIEKFISYKYN----DIKEEEKKSAIAFSDGIPGKVEKFIEDDS---------LKN--------IRNMSLEILKDIK  211 (313)
T ss_pred             CHHHHHHHHHHHhc----CCCHHHHHHHHHHcCCCHHHHHHHhcccH---------HHH--------HHHHHHHHHHHHH
Confidence            99999999986543    57888899999999999888776552211         111        12355666654  


Q ss_pred             -cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCC
Q psy12150        275 -DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGG  349 (456)
Q Consensus       275 -~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~  349 (456)
                       ++...++.+...+...++++..++    ++||+++.....                                 .     
T Consensus       212 ~~~~~~~l~~~~~l~~~~~~~~~~l~~l~~~~rdll~~k~~---------------------------------~-----  253 (313)
T PRK05564        212 KSNINILLKYENFLIKYKENWEEILTCILSYIRDSLLYKET---------------------------------G-----  253 (313)
T ss_pred             cCCHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHhcc---------------------------------C-----
Confidence             677788888999988888887755    566666511100                                 0     


Q ss_pred             CCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy12150        350 EGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNA  429 (456)
Q Consensus       350 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~  429 (456)
                                   .                    .     ..++ ..|....+.....   .++......+++.+.++++
T Consensus       254 -------------~--------------------~-----~~~~-~~~~~~~i~~~a~---~~s~~~L~~~~~~l~~~~~  291 (313)
T PRK05564        254 -------------N--------------------E-----ELII-NIDKIEDIKHISE---KFSYKKLNKMIEIINDTRD  291 (313)
T ss_pred             -------------c--------------------h-----hhhc-ChhHHHHHHHHHh---hCCHHHHHHHHHHHHHHHH
Confidence                         0                    0     0001 1122223322222   5788889999999999999


Q ss_pred             hhhcCCChhHHHHHHHHHHHH
Q psy12150        430 RLQDGASEYIQILDLGSIVIK  450 (456)
Q Consensus       430 ~l~~g~~~~~ql~~l~~~~~~  450 (456)
                      .++.+.|..+.+..++..+..
T Consensus       292 ~l~~n~n~~l~le~lll~~~~  312 (313)
T PRK05564        292 NLSSNVNPTLVFDSMLIKMQE  312 (313)
T ss_pred             HHHHcCCccHHHHHHHHhhhc
Confidence            999999999999999887653

>PRK05907 hypothetical protein; Provisional

Probab=99.95  E-value=3e-25  Score=213.72  Aligned_cols=287  Identities=9%  Similarity=0.063  Sum_probs=227.0

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCC
Q psy12150         54 VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK  133 (456)
Q Consensus        54 ~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  133 (456)
                      +..+.+.+++|. |.|++||.+-   ..+.+.+.+.+..+..    ..+++.+.    .+.+.+..+.+.+++.      
T Consensus         7 ~~~~~~~~~~~~-~~y~~~g~~~---~~~~~~l~~~~~~~~~----~~fdg~~~----~~~~ii~~aetlPfFa------   68 (311)
T PRK05907          7 FKDFSQYYEEKR-PAVIVIGSSS---EEDKDIFIELLVSGRK----SEFDGQGL----LQQELLSWTEHFGLFA------   68 (311)
T ss_pred             HHHHHHHHhcCC-ceEEEecCCc---HHHHHHHHHHhCCCcc----ceecCCCC----CHHHHHHHHhcCCccc------
Confidence            456677788888 7799999997   6677777776643321    33455442    2344455555555554      


Q ss_pred             CCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE-EEec--CcccccccccCCceE---EEecCCCHHHHHHHHHH
Q psy12150        134 PCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC-LICN--YVSCIIQPLTSRCSK---FRFKPLAENTMLTRLQY  207 (456)
Q Consensus       134 ~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI-l~~~--~~~kl~~~l~~r~~~---i~f~~~~~~el~~~l~~  207 (456)
                         ++|+|++.+.+.+.....+.|..|+++|++.+++| ++.+  .++++.+.+.+.+.+   ++|.++.+.++..|+..
T Consensus        69 ---erRlV~v~~~~~~~~~~~~~L~~Yl~np~~~~~liv~~~~~d~~kkl~K~i~k~~~v~~~~e~~~l~e~~L~~Wi~~  145 (311)
T PRK05907         69 ---SQETIGIYQAEKMSSSTQEFLIRYARNPNPHLTLFLFTTKQECFSSLSKKLSSALCLSLFGEWFADRDKRIAQLLIQ  145 (311)
T ss_pred             ---CeEEEEEecccccccccHHHHHHHHhCCCCCeEEEEEEecccHHHHHHHHHhhcceeccccccCCCCHHHHHHHHHH
Confidence               88999999988887767889999999999975555 5542  123344555533333   48999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhh-CCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHH
Q psy12150        208 ICEQESVMCDFKALETLVETS-GGDMRRAITCLQSCARLK-GGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEK  282 (456)
Q Consensus       208 ~~~~~~~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~-~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~  282 (456)
                      ++++.|+.+++++++.++.++ ++|+..+.++++|++.|+ +++.||.++|.++++.+.+.++|+|+++   |+..+|++
T Consensus       146 ~~~~~g~~i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~s~e~nIF~L~dai~~~~~~~Al~  225 (311)
T PRK05907        146 RAKELGISCSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVKKEAASLWKLRDALLRRDRVEGHS  225 (311)
T ss_pred             HHHHcCCCcCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcCcccccHHHHHHHHHccCHHHHHH
Confidence            999999999999999999999 599999999999999996 4778999999999999999999999999   99999999


Q ss_pred             HHHHHHHh-ccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccc
Q psy12150        283 YIEDLILE-AYSATQLF----DQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDV  357 (456)
Q Consensus       283 ~~~~l~~~-~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~  357 (456)
                      +|++|+.+ |++|+.|+    |||  ++                                                    
T Consensus       226 il~~Ll~~~ge~p~~ILall~rQf--l~----------------------------------------------------  251 (311)
T PRK05907        226 LLRSLLSDMGEDPLGIIAFLRSQC--LY----------------------------------------------------  251 (311)
T ss_pred             HHHHHHHhcCCChHHHHHHHHHHH--HH----------------------------------------------------
Confidence            99999999 99999977    787  55                                                    


Q ss_pred             hhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCC-C
Q psy12150        358 LEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGA-S  436 (456)
Q Consensus       358 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~-~  436 (456)
                                                .++.+..+|++..      |++-.   -++...+.+++..++++|+++++|. +
T Consensus       252 --------------------------~~k~l~~~g~~~~------~p~~v---afs~~~L~~~~~~l~~~D~~iKtg~~d  296 (311)
T PRK05907        252 --------------------------GLRSIEEQSKERK------HRIFV---AYGKERLLQALNLLFYAESLIKNNVQD  296 (311)
T ss_pred             --------------------------HHHHHHHhcCCCC------CCeEE---EECHHHHHHHHHHHHHHHHHHhcCCCC
Confidence                                      5777788887733      55222   1799999999999999999999985 5


Q ss_pred             hhHHHHHHHHHHHH
Q psy12150        437 EYIQILDLGSIVIK  450 (456)
Q Consensus       437 ~~~ql~~l~~~~~~  450 (456)
                      ..+.+.-|+..++.
T Consensus       297 ~~~~lElli~~~~~  310 (311)
T PRK05907        297 PILAVETLVIRMTN  310 (311)
T ss_pred             hHHHHHHHHHHHhc
Confidence            55567778877663

>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=99.95  E-value=2.3e-26  Score=206.02  Aligned_cols=200  Identities=23%  Similarity=0.305  Sum_probs=145.0

Q ss_pred             CCCCCCCcchhccCCCCcccccccHHHHHHHHHHHh-----cCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEE
Q psy12150         27 KTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLS-----GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (456)
Q Consensus        27 ~~~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~-----~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e  101 (456)
                      .......|+.++.||++|+|++||++++..++-+++     +..++|++||||||+||||+|+.+++++..     ++..
T Consensus         6 ~~~~~~~~l~~~lRP~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~-----~~~~   80 (233)
T PF05496_consen    6 QEQEEEAPLAERLRPKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGV-----NFKI   80 (233)
T ss_dssp             ------S-HHHHTS-SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT-------EEE
T ss_pred             ccCCcchhhHHhcCCCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCC-----CeEe
Confidence            345667899999999999999999999988876654     345678999999999999999999999754     4556


Q ss_pred             eeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc----------------
Q psy12150        102 LNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET----------------  165 (456)
Q Consensus       102 ~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~----------------  165 (456)
                      .++.......++...+..+.               +..|+||||+|+|++..++.|+.+||+..                
T Consensus        81 ~sg~~i~k~~dl~~il~~l~---------------~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~  145 (233)
T PF05496_consen   81 TSGPAIEKAGDLAAILTNLK---------------EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRI  145 (233)
T ss_dssp             EECCC--SCHHHHHHHHT-----------------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEE
T ss_pred             ccchhhhhHHHHHHHHHhcC---------------CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeec
Confidence            66655444555555443321               33499999999999999999999999743                


Q ss_pred             --CcceEEEEecCcccccccccCCceE-EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy12150        166 --KSTRFCLICNYVSCIIQPLTSRCSK-FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSC  242 (456)
Q Consensus       166 --~~~~lIl~~~~~~kl~~~l~~r~~~-i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~  242 (456)
                        +...+|-+++....+..+|++|+.. .++..++.+++..++.+.+...+++++++++.+|+.+|.|++|-+.+.|+.+
T Consensus       146 ~l~~FTligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrGtPRiAnrll~rv  225 (233)
T PF05496_consen  146 NLPPFTLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRGTPRIANRLLRRV  225 (233)
T ss_dssp             E----EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTTSHHHHHHHHHHH
T ss_pred             cCCCceEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCCChHHHHHHHHHH
Confidence              1234666677778889999999985 5799999999999999999999999999999999999999999999999998


Q ss_pred             HHhh
Q psy12150        243 ARLK  246 (456)
Q Consensus       243 ~~~~  246 (456)
                      ..|+
T Consensus       226 rD~a  229 (233)
T PF05496_consen  226 RDFA  229 (233)
T ss_dssp             CCCC
T ss_pred             HHHH
Confidence            7765

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.

>KOG2028|consensus

Probab=99.94  E-value=9e-26  Score=211.22  Aligned_cols=260  Identities=20%  Similarity=0.253  Sum_probs=204.7

Q ss_pred             CCCcchhccCCCCcccccccHHHH---HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVV---SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~---~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      ...|+.|+-||++++|.+||++.+   .-|+..++.++.|.++|+||||||||++|+.++.......  ..++++++.. 
T Consensus       124 qh~PLaermRPktL~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~S--yrfvelSAt~-  200 (554)
T KOG2028|consen  124 QHKPLAERMRPKTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHS--YRFVELSATN-  200 (554)
T ss_pred             ccCChhhhcCcchHHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCc--eEEEEEeccc-
Confidence            567999999999999999999988   4588999999999999999999999999999998754433  4688888776 


Q ss_pred             cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEec--Cccccccccc
Q psy12150        108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN--YVSCIIQPLT  185 (456)
Q Consensus       108 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~--~~~kl~~~l~  185 (456)
                      .+..+++..++..-......        ..+.|+||||++++++.+|+.++..+|+..  +.+|-+++  ....+..+|.
T Consensus       201 a~t~dvR~ife~aq~~~~l~--------krkTilFiDEiHRFNksQQD~fLP~VE~G~--I~lIGATTENPSFqln~aLl  270 (554)
T KOG2028|consen  201 AKTNDVRDIFEQAQNEKSLT--------KRKTILFIDEIHRFNKSQQDTFLPHVENGD--ITLIGATTENPSFQLNAALL  270 (554)
T ss_pred             cchHHHHHHHHHHHHHHhhh--------cceeEEEeHHhhhhhhhhhhcccceeccCc--eEEEecccCCCccchhHHHH
Confidence            55666777666554333222        255699999999999999999999988754  44555443  4467889999


Q ss_pred             CCceEEEecCCCHHHHHHHHHHHHH------Hc-------CCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--C---
Q psy12150        186 SRCSKFRFKPLAENTMLTRLQYICE------QE-------SVMCDFKALETLVETSGGDMRRAITCLQSCARLK--G---  247 (456)
Q Consensus       186 ~r~~~i~f~~~~~~el~~~l~~~~~------~~-------~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~---  247 (456)
                      +||.++.+.+++.+++..+|.+...      +.       .+.+++.+++.|+..+.||.|.++|.|+......  .   
T Consensus       271 SRC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR~aLN~Lems~~m~~tr~g~  350 (554)
T KOG2028|consen  271 SRCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDARAALNALEMSLSMFCTRSGQ  350 (554)
T ss_pred             hccceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhhcCC
Confidence            9999999999999999999987443      11       1247889999999999999999999999874332  1   


Q ss_pred             --CCCCCHHHHHHHhCCCC------HHHHHHHHcc-------cchHHHHHHHHHHHHhccCHHHHHHHHHH
Q psy12150        248 --GEGIVNEDVLEVTGVIP------KPWIEKLLKV-------DSFQVLEKYIEDLILEAYSATQLFDQFHD  303 (456)
Q Consensus       248 --~~~It~~~v~~~~~~~~------~~~i~~l~~~-------~~~~~a~~~~~~l~~~~~~~~~i~~q~~~  303 (456)
                        ...++.+||++.+....      .+.-...+.+       ++...++.|+..|++.||+|+-+.|.+-+
T Consensus       351 ~~~~~lSidDvke~lq~s~~~YDr~Ge~HYntISA~HKSmRG~D~nAslY~LaRMLegGEdPLYVARRlvR  421 (554)
T KOG2028|consen  351 SSRVLLSIDDVKEGLQRSHILYDRAGEEHYNTISALHKSMRGSDQNASLYWLARMLEGGEDPLYVARRLVR  421 (554)
T ss_pred             cccceecHHHHHHHHhhccceecccchhHHHHHHHHHHhhcCCccchHHHHHHHHHccCCCcHHHHHHHHH
Confidence              23789999998876441      2233333333       88889999999999999999988876543

>PRK07914 hypothetical protein; Reviewed

Probab=99.94  E-value=4.1e-24  Score=209.13  Aligned_cols=290  Identities=11%  Similarity=0.060  Sum_probs=231.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC--CccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG--DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDE  145 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~--~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE  145 (456)
                      -|+|||++-+........+.+.+..  +...+++..+++.+...    .+ +.++...+.+         +++|+|++++
T Consensus         7 iYll~G~E~~l~~~~~~~i~~~~~~~~~~~~~n~~~~d~~~~~~----~~-i~~~~t~plF---------~~rRlV~v~~   72 (320)
T PRK07914          7 LHLVLGDEELLVERAVAAVLRSARQRAGTADVPVSRMRAGDVST----YE-LAELLSPSLF---------AEERVVVLEA   72 (320)
T ss_pred             eEEEEecHHHHHHHHHHHHHHHHhcCcCCCCCceEEeccccCCH----HH-HHHhcCCCCC---------CCceEEEEeC
Confidence            3999999988888888888876643  33355788888766433    22 3444434444         3889999999


Q ss_pred             CCCccHHHHHHHHHHHHhccCcceEEEEecC---cccccccccCCc-eEEEecCC-CHHHHHHHHHHHHHHcCCCCCHHH
Q psy12150        146 ADSMTHAAQAALRRTMEKETKSTRFCLICNY---VSCIIQPLTSRC-SKFRFKPL-AENTMLTRLQYICEQESVMCDFKA  220 (456)
Q Consensus       146 ~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~---~~kl~~~l~~r~-~~i~f~~~-~~~el~~~l~~~~~~~~~~i~~~~  220 (456)
                      +..+.++..+.|..|++++++.+++|++++.   .+++++.+.+.+ ..+.|.++ +..++..|+..++++.|+.+++++
T Consensus        73 ~~~~~~~~~~~l~~~l~~~~~~t~lil~~~~~~~~kk~~K~L~k~g~~~v~~~~~~~~~~l~~wi~~~a~~~g~~i~~~A  152 (320)
T PRK07914         73 AAEAGKDAAALILSAAADLPPGTVLVVVHSGGGRAKALANQLRKLGAEVHPCARITKAAERADFVRKEFRSLRVKVDDDT  152 (320)
T ss_pred             hHhccHHHHHHHHHHHhCCCCCeEEEEEecCCcchhHHHHHHHHCCCEEEecCCCCCHHHHHHHHHHHHHHcCCCCCHHH
Confidence            8877766778899999999998888887542   344567787775 48899999 999999999999999999999999


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHH
Q psy12150        221 LETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQL  297 (456)
Q Consensus       221 l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i  297 (456)
                      ++.|++++++|+..+.+++++++.|. ++.||.++|.++++...+.++|+++++   |+..+|..++++|+..|++|+.|
T Consensus       153 ~~~L~~~~g~dl~~l~~EleKL~~~~-~~~It~e~V~~~v~~~~~~~vf~L~dAi~~g~~~~A~~~l~~L~~~ge~p~~i  231 (320)
T PRK07914        153 VTALLDAVGSDLRELASACSQLVADT-GGAVDAAAVRRYHSGKAEVKGFDIADKAVAGDVAGAAEALRWAMMRGEPHVVL  231 (320)
T ss_pred             HHHHHHHHCccHHHHHHHHHHHhcCC-CCCcCHHHHHHHcCCCeechHHHHHHHHHCCCHHHHHHHHHHHHHCCCchHHH
Confidence            99999999999999999999997764 468999999999999999999999999   99999999999999999999987


Q ss_pred             H----HHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHh
Q psy12150        298 F----DQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLL  373 (456)
Q Consensus       298 ~----~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~  373 (456)
                      +    +|||.++                                                                    
T Consensus       232 l~~l~~~~r~L~--------------------------------------------------------------------  243 (320)
T PRK07914        232 ADALAEAVHTIA--------------------------------------------------------------------  243 (320)
T ss_pred             HHHHHHHHHHHH--------------------------------------------------------------------
Confidence            6    7888877                                                                    


Q ss_pred             hhCChHHHHHHHHHHHHcCCCHHHHHHHH-------HHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcC-CChhHHHHHHH
Q psy12150        374 KVDSFQVLEKYIEDLILEAYSATQLFDQF-------HDIVMSASSLSDKQKALILEKLAECNARLQDG-ASEYIQILDLG  445 (456)
Q Consensus       374 ~~~~~~~~~~~~~~l~~~g~s~~di~~~l-------~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g-~~~~~ql~~l~  445 (456)
                                .++.+  .| +..++.+.+       ..+......++.....+++..|+++|+.++.| .+..+.+..++
T Consensus       244 ----------~~k~~--~~-~~~~i~~~l~i~p~~~~~~~~~~~~~s~~~L~~~l~~l~~~D~~lK~~~~~~~~~lE~~i  310 (320)
T PRK07914        244 ----------RVGPL--SG-DPYRLAGELGMPPWRVQKAQKQARRWSRDTVATAMRVVAALNADVKGAAADADYALESAV  310 (320)
T ss_pred             ----------HHHHh--cC-CHHHHHHHcCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcCCCChHHHHHHHH
Confidence                      12211  12 344444333       11222334799999999999999999999987 67778899999


Q ss_pred             HHHHHHhc
Q psy12150        446 SIVIKANK  453 (456)
Q Consensus       446 ~~~~~~~~  453 (456)
                      ..++++..
T Consensus       311 ~~~~~~~~  318 (320)
T PRK07914        311 RRVAELVA  318 (320)
T ss_pred             HHHHHHhc
Confidence            99998754

>PRK07452 DNA polymerase III subunit delta; Validated

Probab=99.94  E-value=5.2e-24  Score=209.49  Aligned_cols=295  Identities=16%  Similarity=0.130  Sum_probs=228.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcCCc-cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcC
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFGDM-YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDE  145 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE  145 (456)
                      |.|+|||+....+...++.+.+.+..+. ..+++..+++.+.   +.+.+.+......+++         +++++|++++
T Consensus         2 ~~yll~G~e~~l~~~~~~~l~~~~~~~~~~~fn~~~~d~~~~---~~~~~~~~~~~t~pff---------~~~rlVvv~~   69 (326)
T PRK07452          2 PIYLYWGEDDFALNQAIEKLIDQVVDPEWKSFNYSRLDGDDA---DQAIQALNEAMTPPFG---------SGGRLVWLKN   69 (326)
T ss_pred             CEEEEEcChHHHHHHHHHHHHHHhCCchhhhcchhhcCCccc---hHHHHHHHHhcCCCCC---------CCceEEEEeC
Confidence            5699999999999999999988765432 2345666665542   1233333333333333         3788999999


Q ss_pred             CCCc---cHHHHHHHHHHHHhccCcceEEEEecC----cccccccccCCceEEEecCC---CHHHHHHHHHHHHHHcCCC
Q psy12150        146 ADSM---THAAQAALRRTMEKETKSTRFCLICNY----VSCIIQPLTSRCSKFRFKPL---AENTMLTRLQYICEQESVM  215 (456)
Q Consensus       146 ~d~l---~~~~~~~Ll~~le~~~~~~~lIl~~~~----~~kl~~~l~~r~~~i~f~~~---~~~el~~~l~~~~~~~~~~  215 (456)
                      ++.+   ..+..+.|.++++++++++++|+++..    +.+..+.+.+.+....|.++   +.+++..|+..++++.|+.
T Consensus        70 ~~~~~~~~~~~~~~L~~~l~~~~~~~~li~~~~~~~d~r~k~~k~l~k~~~~~~~~~~~~~~~~~l~~~i~~~~~~~g~~  149 (326)
T PRK07452         70 SPLCQGCSEELLAELERTLPLIPENTHLLLTNTKKPDGRLKSTKLLQKLAEEKEFSLIPPWDTEGLKQLVERTAQELGVK  149 (326)
T ss_pred             chhhccCCHHHHHHHHHHHcCCCCCcEEEEEeCCCcchHHHHHHHHHHceeEEEecCCCcccHHHHHHHHHHHHHHcCCC
Confidence            8665   456778899999998888888886432    23456667777888888765   4577999999999999999


Q ss_pred             CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHh
Q psy12150        216 CDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILE  290 (456)
Q Consensus       216 i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~  290 (456)
                      +++++++.|+..+++|++.+.+++++++.|+  +++.||.++|.++++.. +.++|+++++   |+..+|...+++|+.+
T Consensus       150 i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~~~-~~~if~l~dai~~~~~~~A~~~l~~L~~~  228 (326)
T PRK07452        150 LTPEAAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVSNT-TQNSLQLADALLQGNTGKALALLDDLLDA  228 (326)
T ss_pred             CCHHHHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhccC-cCcHHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence            9999999999999999999999999999995  36689999999999876 6899999999   9999999999999999


Q ss_pred             ccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCc
Q psy12150        291 AYSATQLF----DQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPN  366 (456)
Q Consensus       291 ~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~  366 (456)
                      |++|+.|+    +|||.++                                                             
T Consensus       229 g~~p~~il~~l~~~~r~l~-------------------------------------------------------------  247 (326)
T PRK07452        229 NEPALRIVATLTGQFRTWL-------------------------------------------------------------  247 (326)
T ss_pred             CCcHHHHHHHHHHHHHHHH-------------------------------------------------------------
Confidence            99999876    7888777                                                             


Q ss_pred             hHHHHHhhhCChHHHHHHHHHHHHcCCC-HHHHHHHH--------HHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCCh
Q psy12150        367 PWIEKLLKVDSFQVLEKYIEDLILEAYS-ATQLFDQF--------HDIVMSASSLSDKQKALILEKLAECNARLQDGASE  437 (456)
Q Consensus       367 ~~~~~~~~~~~~~~~~~~~~~l~~~g~s-~~di~~~l--------~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~  437 (456)
                                       .++.+..+|.+ ..+|.+.+        +.+......++.....+++..|.++|+.+++|.++
T Consensus       248 -----------------~~k~~~~~G~~~~~~ia~~lgi~~p~~~~~~~~~~~~~s~~~L~~~l~~L~~~D~~iK~g~~~  310 (326)
T PRK07452        248 -----------------WVKLLVESGERDVKVIAKAAGIGNPKRIYFLRKEVQGLSSQQLLKLLPLLLDLEASLKQGANP  310 (326)
T ss_pred             -----------------HHHHHHHcCCCcHHHHHHHhCCCCcHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCh
Confidence                             33333444443 22233222        11112224799999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHh
Q psy12150        438 YIQILDLGSIVIKAN  452 (456)
Q Consensus       438 ~~ql~~l~~~~~~~~  452 (456)
                      ..-|..++..+|..+
T Consensus       311 ~~~le~~i~~~~~~~  325 (326)
T PRK07452        311 INALQDKLIELCQLL  325 (326)
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999999998765

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.93  E-value=1.8e-23  Score=207.72  Aligned_cols=184  Identities=22%  Similarity=0.350  Sum_probs=151.7

Q ss_pred             CcccccccHHHHHHHHHHHhcCC---------CCe-EEEECCCCCcHHHHHHHHHHHhcCCcc-----------------
Q psy12150         43 TIDDVIEQQEVVSVLKKCLSGAD---------LPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-----------------   95 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~~~~---------~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~-----------------   95 (456)
                      .|++++||+.+++.|++++..++         .+| |||+||+|+|||++|+.+++.+.++..                 
T Consensus         3 ~f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~   82 (394)
T PRK07940          3 VWDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAG   82 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcC
Confidence            58999999999999999999876         677 999999999999999999999876421                 


Q ss_pred             -ccceEEeeCC-CCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEE
Q psy12150         96 -RERILELNAS-DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLI  173 (456)
Q Consensus        96 -~~~~~e~n~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~  173 (456)
                       ..++..+... ...+++.+++.+..+...+..         ++++|+||||+|.|+...++.|++.||+|++.++||++
T Consensus        83 ~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~---------~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~  153 (394)
T PRK07940         83 THPDVRVVAPEGLSIGVDEVRELVTIAARRPST---------GRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLC  153 (394)
T ss_pred             CCCCEEEeccccccCCHHHHHHHHHHHHhCccc---------CCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEE
Confidence             0122223222 234567777766655544322         26789999999999999999999999999999999999


Q ss_pred             ecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        174 CNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ  240 (456)
Q Consensus       174 ~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~  240 (456)
                      ++++..+.++|+|||..+.|++|+.+++.+||...   .+  ++++.+..++..++|+++.++..+.
T Consensus       154 a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~---~~--~~~~~a~~la~~s~G~~~~A~~l~~  215 (394)
T PRK07940        154 APSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRR---DG--VDPETARRAARASQGHIGRARRLAT  215 (394)
T ss_pred             ECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHh---cC--CCHHHHHHHHHHcCCCHHHHHHHhc
Confidence            99999999999999999999999999999998732   23  6788899999999999999887763

>PRK05629 hypothetical protein; Validated

Probab=99.93  E-value=2.2e-23  Score=203.84  Aligned_cols=299  Identities=10%  Similarity=0.044  Sum_probs=224.9

Q ss_pred             CCe-EEEECCCCCcHHHHHHHHHHHhcCC-ccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEE
Q psy12150         66 LPH-FLFYGPPGTGKTSTMIAACHQLFGD-MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVIL  143 (456)
Q Consensus        66 ~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~-~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviI  143 (456)
                      +++ |+|||+...........+.+.+... ...+++..+++.+.. .+.+.    +....+.+         +++|+|++
T Consensus         5 l~~vyL~~G~e~~l~~~~~~~i~~~~~~~~~~~~n~~~~d~~e~~-~~~l~----~~~t~slF---------~~~rlV~v   70 (318)
T PRK05629          5 QPPVHLVLGDDEFLAERARLNIVHDIRSSMADSLQVTTLKASEVS-QGELL----DALSPSLF---------GEDRVIVL   70 (318)
T ss_pred             CCceEEEEeCHHHHHHHHHHHHHHHHhccCCCCCceEEeecccCC-HHHHH----HhhCcCcc---------CCceEEEE
Confidence            344 9999999777666666677666443 234678888877643 23332    23333333         37889999


Q ss_pred             cCCCCccHHHHHHHHHHHHhccCcceEEEEecC---cccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHH
Q psy12150        144 DEADSMTHAAQAALRRTMEKETKSTRFCLICNY---VSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKA  220 (456)
Q Consensus       144 DE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~---~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~  220 (456)
                      ++++...+...+.+..++.++++.+++|+++..   .+++++.+.+.+..++|.++.+.++..|+..++++.|+++++++
T Consensus        71 ~~~~~~~~~~~~~l~~~l~~~~~~~~Lil~~~~~~~~kk~~K~l~k~~~~ve~~~~~~~~l~~wi~~~~~~~g~~i~~~A  150 (318)
T PRK05629         71 TNMEQAGKEPTDLALSAAVDPSPGIYLIIMHSGGGRTKSMVPKLEKIAVVHEAAKLKPRERPGWVTQEFKNHGVRPTPDV  150 (318)
T ss_pred             eChHhcChhHHHHHHHHHhCCCCCeEEEEEcCCcchhhHHHHHHHhcceEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHH
Confidence            998876666677889999999888888887753   34466778888999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHH
Q psy12150        221 LETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQL  297 (456)
Q Consensus       221 l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i  297 (456)
                      ++.|+..+++|+..+.+++++++.|. ++.||.++|.+++....+.++|+++++   |+..+|+.++++|+..|++|+.|
T Consensus       151 ~~~L~~~~g~dl~~l~~EleKL~~~~-~~~It~e~V~~~v~~~~~~~iF~l~dAv~~g~~~~Al~~l~~l~~~g~~pi~i  229 (318)
T PRK05629        151 VHALLEGVGSDLRELASAISQLVEDT-QGNVTVEKVRAYYVGVAEVSGFDIADLACAGQVSKAVASTRRALQLGVSPVAL  229 (318)
T ss_pred             HHHHHHHHCccHHHHHHHHHHHHhcC-CCCcCHHHHHHHhCCCccchHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHH
Confidence            99999999999999999999998775 568999999999999999999999999   99999999999999999999997


Q ss_pred             H----HHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHh
Q psy12150        298 F----DQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLL  373 (456)
Q Consensus       298 ~----~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~  373 (456)
                      +    +|||.+.-+                                ++..     +. ....++....            
T Consensus       230 l~~l~~~~r~l~~l--------------------------------~~~~-----~~-~~~~~ia~~l------------  259 (318)
T PRK05629        230 AAALSMKVGQIARL--------------------------------YSTR-----GR-IDSFELAKEL------------  259 (318)
T ss_pred             HHHHHHHHHHHHHH--------------------------------Hhhc-----CC-CCHHHHHHHc------------
Confidence            6    555544300                                0000     00 0000011111            


Q ss_pred             hhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcC-CChhHHHHHHHHHHHHH
Q psy12150        374 KVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDG-ASEYIQILDLGSIVIKA  451 (456)
Q Consensus       374 ~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g-~~~~~ql~~l~~~~~~~  451 (456)
                                        |..+. .+.   .+......|+.....+++..|+++|+.++.| .+..+-|..+|..+.++
T Consensus       260 ------------------~i~p~-~~~---~~~~~ar~~s~~~L~~~l~~l~~~D~~~K~~~~d~~~~lE~~i~~~~~~  316 (318)
T PRK05629        260 ------------------GMPPF-VVE---KTAKVARNWSGDAVSEAVILMADLDAAVKGQGGDPEFAIESAVRRVAEL  316 (318)
T ss_pred             ------------------CCChH-HHH---HHHHHHhCCCHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHhh
Confidence                              11111 111   1222234789999999999999999999985 58888999999887653

>PRK06585 holA DNA polymerase III subunit delta; Reviewed

Probab=99.92  E-value=3.2e-22  Score=198.19  Aligned_cols=303  Identities=13%  Similarity=0.107  Sum_probs=231.4

Q ss_pred             HHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHhcCCc-cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCC
Q psy12150         57 LKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK  133 (456)
Q Consensus        57 l~~~l~~--~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  133 (456)
                      +...+..  +..|.|+|||++.+.....++.+.+.+.... ..+++..+++.+...  +..+.+..+...+.++      
T Consensus         9 ~~~~l~~~~~~~~~yll~G~e~~li~~~~~~l~~~~~~~~~~~fn~~~~~~~e~~~--~~~~~~~~~~t~slF~------   80 (343)
T PRK06585          9 VDRFLARPDPKIRAVLLYGPDRGLVRERARRLAKSVVPDLDDPFAVVRLDGDDLDA--DPARLEDEANAISLFG------   80 (343)
T ss_pred             HHHHHhCCCCCCeEEEEeCCchHHHHHHHHHHHHHhcCCCCCCcceeeccHHHhhc--CHHHHHHHHhCCCCCC------
Confidence            4444543  2445599999999999999999888765432 123555555443110  1234444444444443      


Q ss_pred             CCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCc---cccccccc--CCceEEEecCCCHHHHHHHHHHH
Q psy12150        134 PCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYV---SCIIQPLT--SRCSKFRFKPLAENTMLTRLQYI  208 (456)
Q Consensus       134 ~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~---~kl~~~l~--~r~~~i~f~~~~~~el~~~l~~~  208 (456)
                         ++++|++++.+   ....+.|..+++++++.+++|+.+...   .++.+.+.  ..+..+.|.+++..++..|+..+
T Consensus        81 ---~~rlViv~~~~---~~~~~~L~~~l~~~~~~~~lil~~~~~~~~~kl~k~~~~~~~~~~v~~~~~~~~~l~~~i~~~  154 (343)
T PRK06585         81 ---GRRLIWVRAGS---KNLAAALKALLESPPGDAFIVIEAGDLKKGSSLRKLFETAAYAAAIPCYADDERDLARLIDDE  154 (343)
T ss_pred             ---CceEEEEECCc---hhHHHHHHHHHcCCCCCcEEEEEcCCCCcccHHHHHHhcCCCeeEEecCCCCHHHHHHHHHHH
Confidence               77899999764   344567888999988888888776542   23334332  33567899999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhC-CCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHH
Q psy12150        209 CEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKG-GEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYI  284 (456)
Q Consensus       209 ~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~-~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~  284 (456)
                      +++.|+++++++++.|++.++||++.+.++|++++.|++ ++.||.++|.++++...+.++|+++++   |+..+|..++
T Consensus       155 ~~~~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~It~edV~~lv~~~~e~~if~l~dai~~~~~~~a~~~l  234 (343)
T PRK06585        155 LAEAGLRITPDARALLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVGDASALSLDDAADAALAGDLAAFERAL  234 (343)
T ss_pred             HHHCCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHhCCcccccHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999999999999999999999999999974 568999999999999999999999999   9999999999


Q ss_pred             HHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhc
Q psy12150        285 EDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEV  360 (456)
Q Consensus       285 ~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~  360 (456)
                      +.|+.+|++|+.|+    +|||.++                                                       
T Consensus       235 ~~ll~~g~~p~~il~~L~~~~r~L~-------------------------------------------------------  259 (343)
T PRK06585        235 DRALAEGTAPVLILRAALRHFQRLH-------------------------------------------------------  259 (343)
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHHHH-------------------------------------------------------
Confidence            99999999999976    7888877                                                       


Q ss_pred             ccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHH---------HHHhcCCCCCHHHHHHHHHHHHHHHhhh
Q psy12150        361 TGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFH---------DIVMSASSLSDKQKALILEKLAECNARL  431 (456)
Q Consensus       361 ~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~---------~~~~~~~~~~~~~~~~~~~~l~~~~~~l  431 (456)
                                             .++.+..+|.+..+++..+.         .+......++.....+++..|.++|+.+
T Consensus       260 -----------------------~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~a~~~s~~~L~~~l~~l~~~d~~l  316 (343)
T PRK06585        260 -----------------------IVRLKVENGKSAEQAIASLRPPVFFKRKPDFEKALRRWSLERLLRALERLQAAELDC  316 (343)
T ss_pred             -----------------------HHHHHHhcCCCHHHHHHhhCCCCCcchHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Confidence                                   45555566777766666542         1222334789999999999999999999


Q ss_pred             hcCC-ChhHHHHHHHHHHHHH
Q psy12150        432 QDGA-SEYIQILDLGSIVIKA  451 (456)
Q Consensus       432 ~~g~-~~~~ql~~l~~~~~~~  451 (456)
                      +.|. ++.+-+..++..++..
T Consensus       317 K~~~~~~~~~le~~i~~~~~~  337 (343)
T PRK06585        317 RRNPALADAIARRVLLSIAVR  337 (343)
T ss_pred             hcCCCcHHHHHHHHHHHHHHH
Confidence            9975 4455578888887764

>PRK08487 DNA polymerase III subunit delta; Validated

Probab=99.91  E-value=7.1e-22  Score=193.88  Aligned_cols=231  Identities=18%  Similarity=0.166  Sum_probs=184.2

Q ss_pred             HHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCC
Q psy12150         55 SVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK  133 (456)
Q Consensus        55 ~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  133 (456)
                      .++.+.++.+.+++ |+|||++-+.+...+..+.+.+..+....+ +.++  + .   +..+.+..+...+.++      
T Consensus         4 ~~l~~~lk~~~l~~vyll~GeE~yli~~~~~~i~~~~~~~~~~~~-~~~~--~-~---~~~~i~~~~~t~plF~------   70 (328)
T PRK08487          4 KELDTLLKQNKLPNAFLLYGEDEFQIELYAKKISEKFKPENELKT-LYFD--E-Y---DFEQAKDFLSQSSLFG------   70 (328)
T ss_pred             HHHHHHHhcCCCCceEEEecCchhHHHHHHHHHHHHhcCchHhhh-hchh--h-c---cHHHHHHHHhcccccC------
Confidence            46778888887777 999999988888888888887654322221 2222  1 1   2334445555555554      


Q ss_pred             CCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcc---cccccccCC--ceEEEecCCCHHHHHHHHHHH
Q psy12150        134 PCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS---CIIQPLTSR--CSKFRFKPLAENTMLTRLQYI  208 (456)
Q Consensus       134 ~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~---kl~~~l~~r--~~~i~f~~~~~~el~~~l~~~  208 (456)
                         ++++|++++...+.....+.|..+++++++.+++|++.....   ++.+.+...  +..+.|.++++.++..|+..+
T Consensus        71 ---~~rlViv~~~~~~~~~~~~~L~~~l~~~~~~~~lv~~~~~~~k~kkl~k~~~~~k~~~~v~~~~~~~~~l~~~i~~~  147 (328)
T PRK08487         71 ---GKNLLIIKLDKKIPKKELKLLIELCEKNSDNYFIIELYGADSKTKDIEKLFQKKDEAVFVRFFKPNAREALELLQER  147 (328)
T ss_pred             ---CceEEEEecccccCHHHHHHHHHHHhcCCCCEEEEEecCCcchhHHHHHHhccCCCceEEEeeCCCHHHHHHHHHHH
Confidence               888999999877776677889999999888777776544322   233333333  668999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHH
Q psy12150        209 CEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIE  285 (456)
Q Consensus       209 ~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~  285 (456)
                      +++.|+.+++++++.|+..+++|+..+.++|++++.|.  +.||.++|.++++.+.+.++|+++++   |+  ++...++
T Consensus       148 ~~~~g~~i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~--~~It~edV~~~v~~~~e~~vF~l~dai~~g~--~a~~~l~  223 (328)
T PRK08487        148 AKELGLDIDQNALNHLYFIHNEDLALAANELEKLAILN--EPITLKDIQELVFGLGSVSFEDFFEKLLNKK--DIKDDLE  223 (328)
T ss_pred             HHHhCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHHhc--CCCCHHHHHHHhcccccccHHHHHHHHHCCC--cHHHHHH
Confidence            99999999999999999999999999999999999995  37999999999999999999999999   55  6899999


Q ss_pred             HHHHhccCHHHHH----HHHHHHH
Q psy12150        286 DLILEAYSATQLF----DQFHDIV  305 (456)
Q Consensus       286 ~l~~~~~~~~~i~----~q~~~l~  305 (456)
                      +|+.+|++|+.|+    +|||.++
T Consensus       224 ~L~~~g~~pi~Il~~L~r~~~~L~  247 (328)
T PRK08487        224 KLLEEGFNEIALLNSLERFFYQLF  247 (328)
T ss_pred             HHHHCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999976    7888876

>PRK05574 holA DNA polymerase III subunit delta; Reviewed

Probab=99.91  E-value=1.1e-21  Score=194.21  Aligned_cols=303  Identities=18%  Similarity=0.165  Sum_probs=231.1

Q ss_pred             HHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcC-CccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCC
Q psy12150         55 SVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG  132 (456)
Q Consensus        55 ~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~-~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~  132 (456)
                      ..+.+.++.+ +.+ |+|||+.-.-+...++.+.+.+.. +....++..+++.+..    +.+.+..+...+.++     
T Consensus         6 ~~~~~~~~~~-~~~~~li~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~d~~~~~----~~~l~~~~~t~~lF~-----   75 (340)
T PRK05574          6 EQLEKQLKKG-LAPLYLLYGDEPLLLQEAKDAIRAAARAQGFDERNVFTFDGSETD----WDDVLEACQSLPLFS-----   75 (340)
T ss_pred             HHHHHHHhCC-CCceEEEEcCcHHHHHHHHHHHHHHHHcCCCceeeEEEeecCCCC----HHHHHHHhhccCccc-----
Confidence            4566677766 555 999999977777777777776543 2234456666666432    233333333333333     


Q ss_pred             CCCCCcEEEEEcCCCCccHH----HHHHHHHHHHhccC--cceEEEEecCc---ccc---cccccCCceEEEecCCCHHH
Q psy12150        133 KPCPPFKIVILDEADSMTHA----AQAALRRTMEKETK--STRFCLICNYV---SCI---IQPLTSRCSKFRFKPLAENT  200 (456)
Q Consensus       133 ~~~~~~~iviIDE~d~l~~~----~~~~Ll~~le~~~~--~~~lIl~~~~~---~kl---~~~l~~r~~~i~f~~~~~~e  200 (456)
                          ++++|+|++++.+...    ....+..++ ++++  ..++++..+..   .++   .+.+.+++..++|.+++..+
T Consensus        76 ----~~klvii~~~~~l~~~~~~~~l~~l~~~l-~~~~~~~~~li~~~~~~~~~~k~~k~~k~~~~~~~~~~~~~~~~~~  150 (340)
T PRK05574         76 ----DRKLVELRLPEFLTGAKGEKALKRLEAYL-NPLPHPDLLLIVRLPKLDKAKKKSAWFKALKKKAVVVEAQPPKEAE  150 (340)
T ss_pred             ----cCeEEEEECCCCCCchhHHHHHHHHHHhc-cCCCCCcEEEEEECCcCCHHHHhhHHHHHHHhCceEEEcCCCCHHH
Confidence                7789999999998654    344556666 4444  34455554432   233   67788889999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHHHHcc---cch
Q psy12150        201 MLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSF  277 (456)
Q Consensus       201 l~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~  277 (456)
                      +..|+...+++.|+.+++++++.|++.++||++.+.+++++++.|++++.||.++|.++++...+.++|+++++   ++.
T Consensus       151 ~~~~i~~~~~~~g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~~It~~~I~~~i~~~~~~~~f~l~dai~~~~~  230 (340)
T PRK05574        151 LPQWIQQRLKQQGLQIDAAALQLLAERVEGNLLALAQELEKLALLYPDGKITLEDVEEAVPDSARFDVFDLVDAILAGKI  230 (340)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCH
Confidence            99999999999999999999999999999999999999999999985455999999999999999999999999   899


Q ss_pred             HHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcc
Q psy12150        278 QVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIV  353 (456)
Q Consensus       278 ~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~  353 (456)
                      .++...++.++.+|++|+.|+    ++|+.++                                                
T Consensus       231 ~~a~~~l~~l~~~~~~~~~il~~l~~~~~~l~------------------------------------------------  262 (340)
T PRK05574        231 KRALRILDGLRLEGEEPIKLLAALQREFRLLL------------------------------------------------  262 (340)
T ss_pred             HHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHH------------------------------------------------
Confidence            999999999999999998877    5666666                                                


Q ss_pred             cccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHH-------HHHHhcCCCCCHHHHHHHHHHHHH
Q psy12150        354 NEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQF-------HDIVMSASSLSDKQKALILEKLAE  426 (456)
Q Consensus       354 ~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l-------~~~~~~~~~~~~~~~~~~~~~l~~  426 (456)
                                                    .++.+..+|++..+++..+       ..+......++.....+++..|.+
T Consensus       263 ------------------------------~~k~~~~~g~~~~~~~~~~~i~~~~~~~~~~~~~~~s~~~L~~~l~~L~~  312 (340)
T PRK05574        263 ------------------------------QLKILSQQGYPLQQLAKELRVWPYRVKLALRALQRLSLKQLKQAIQLLAE  312 (340)
T ss_pred             ------------------------------HHHHHHHcCCCHHHHHHHcCCChhHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence                                          4554555666666666544       122233347999999999999999


Q ss_pred             HHhhhhcCC--ChhHHHHHHHHHHHH
Q psy12150        427 CNARLQDGA--SEYIQILDLGSIVIK  450 (456)
Q Consensus       427 ~~~~l~~g~--~~~~ql~~l~~~~~~  450 (456)
                      +|++++.|.  +..+-+..++..++.
T Consensus       313 ~d~~iK~~~~~~~~~~le~~ii~l~~  338 (340)
T PRK05574        313 TDYQIKTGYGGDKWLELELLLLKLAG  338 (340)
T ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhcc
Confidence            999999995  777778888877764

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.91  E-value=2.2e-22  Score=197.31  Aligned_cols=193  Identities=23%  Similarity=0.396  Sum_probs=158.5

Q ss_pred             ccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc-------------c-------
Q psy12150         38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------R-------   96 (456)
Q Consensus        38 ky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~-------------~-------   96 (456)
                      .+.|..+++++|++++...|...+..++.+| +||+||+|+|||++++.+++.+.+...             .       
T Consensus        16 ~~~P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i   95 (351)
T PRK09112         16 VPSPSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQI   95 (351)
T ss_pred             CCCCCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHH
Confidence            3689999999999999999999999999999 999999999999999999999876210             0       


Q ss_pred             -----cceEEeeCC---------CCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHH
Q psy12150         97 -----ERILELNAS---------DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTME  162 (456)
Q Consensus        97 -----~~~~e~n~~---------~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le  162 (456)
                           .++..++..         ....++.+++....+...+..         +.++||||||+|.|+.+.++.|++.+|
T Consensus        96 ~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~---------g~~rVviIDeAd~l~~~aanaLLk~LE  166 (351)
T PRK09112         96 AQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGD---------GNWRIVIIDPADDMNRNAANAILKTLE  166 (351)
T ss_pred             HcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhcccc---------CCceEEEEEchhhcCHHHHHHHHHHHh
Confidence                 012223211         112345566544433333222         267899999999999999999999999


Q ss_pred             hccCcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q psy12150        163 KETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQS  241 (456)
Q Consensus       163 ~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~  241 (456)
                      +++..++||++++.+.++.+++++||..++|.+++.+++.+||...+...+  ++++++..+++.++|++|.+++.++.
T Consensus       167 Epp~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~--~~~~~~~~i~~~s~G~pr~Al~ll~~  243 (351)
T PRK09112        167 EPPARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG--SDGEITEALLQRSKGSVRKALLLLNY  243 (351)
T ss_pred             cCCCCceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC--CCHHHHHHHHHHcCCCHHHHHHHHhc
Confidence            999999999999999999999999999999999999999999998654433  78999999999999999999998864

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.90  E-value=1.2e-22  Score=199.54  Aligned_cols=212  Identities=19%  Similarity=0.201  Sum_probs=167.3

Q ss_pred             CCCCcchhccCCCCcccccccHHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC
Q psy12150         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        30 ~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~-----~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      ....+|-.+|||++|++++|+++.+..+..++..     ..+++++||||||+|||++++++++.+..     .+...+.
T Consensus        10 ~~~~~~~~~~rP~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~-----~~~~~~~   84 (328)
T PRK00080         10 EEEDEIERSLRPKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGV-----NIRITSG   84 (328)
T ss_pred             cccchhhhhcCcCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCC-----CeEEEec
Confidence            3346788899999999999999999998877752     33456999999999999999999999854     2333343


Q ss_pred             CCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc------------------C
Q psy12150        105 SDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------------------K  166 (456)
Q Consensus       105 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~------------------~  166 (456)
                      ........+...+..+               ....+|||||+|.++...++.|+..+++..                  +
T Consensus        85 ~~~~~~~~l~~~l~~l---------------~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~  149 (328)
T PRK00080         85 PALEKPGDLAAILTNL---------------EEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLP  149 (328)
T ss_pred             ccccChHHHHHHHHhc---------------ccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCC
Confidence            3322223333222211               123499999999999888888888877542                  2


Q ss_pred             cceEEEEecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy12150        167 STRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL  245 (456)
Q Consensus       167 ~~~lIl~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~  245 (456)
                      ..++|.+++....+.+++++|+. .++|.+++.+++.++++..+...++.+++++++.|++.++|++|.+.+.++.+..+
T Consensus       150 ~~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~  229 (328)
T PRK00080        150 PFTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDF  229 (328)
T ss_pred             CceEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHHHHHHH
Confidence            35677788888888888999984 78999999999999999999999999999999999999999999999999987766


Q ss_pred             h---CCCCCCHHHHHHHhC
Q psy12150        246 K---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       246 ~---~~~~It~~~v~~~~~  261 (456)
                      +   +.+.|+.+++..++.
T Consensus       230 a~~~~~~~I~~~~v~~~l~  248 (328)
T PRK00080        230 AQVKGDGVITKEIADKALD  248 (328)
T ss_pred             HHHcCCCCCCHHHHHHHHH
Confidence            5   356899999887773

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=99.90  E-value=3.1e-22  Score=196.87  Aligned_cols=290  Identities=34%  Similarity=0.469  Sum_probs=214.9

Q ss_pred             ccccccHHHHHHHHHHHh-cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc-------------------cccceEEee
Q psy12150         45 DDVIEQQEVVSVLKKCLS-GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-------------------YRERILELN  103 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~-~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~-------------------~~~~~~e~n  103 (456)
                      +++++++.....+..+.. .++.+| +||+||||+|||+++.++++.+.+..                   ...++++++
T Consensus         1 ~~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~   80 (325)
T COG0470           1 DELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELN   80 (325)
T ss_pred             CCcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEec
Confidence            367888889989888887 667888 99999999999999999999998644                   235899999


Q ss_pred             CCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCccccccc
Q psy12150        104 ASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQP  183 (456)
Q Consensus       104 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~  183 (456)
                      +++.+..+...+.++.+.........     .+++++|||||+|.|+.+++++|++.+|+|+.+++||++||++.++.++
T Consensus        81 ~s~~~~~~i~~~~vr~~~~~~~~~~~-----~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~t  155 (325)
T COG0470          81 PSDLRKIDIIVEQVRELAEFLSESPL-----EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPT  155 (325)
T ss_pred             ccccCCCcchHHHHHHHHHHhccCCC-----CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccch
Confidence            99988765555556655544322210     1377899999999999999999999999999999999999999999999


Q ss_pred             ccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCC
Q psy12150        184 LTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       184 l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~  263 (456)
                      ++|||..+.|.+++......+.+           ++++..++..+.||+|.+++.++.++..    ......+.+.....
T Consensus       156 I~SRc~~i~f~~~~~~~~i~~~e-----------~~~l~~i~~~~~gd~r~~i~~lq~~~~~----~~~~~~~~~~~~~~  220 (325)
T COG0470         156 IRSRCQRIRFKPPSRLEAIAWLE-----------DQGLEEIAAVAEGDARKAINPLQALAAL----EIGEESIYEALLLA  220 (325)
T ss_pred             hhhcceeeecCCchHHHHHHHhh-----------ccchhHHHHHHHHHHHcCCCHHHHHHHh----cccHHHHHHHHHhh
Confidence            99999999999955544444433           6778899999999999999999988774    22233332222221


Q ss_pred             CHH-----HHHHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHH
Q psy12150        264 PKP-----WIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAIT  338 (456)
Q Consensus       264 ~~~-----~i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~  338 (456)
                      ...     ....++..            ..                                                  
T Consensus       221 ~~~~~~~~~~~~~~~~------------~~--------------------------------------------------  238 (325)
T COG0470         221 LPESLAQLAALELLKL------------AE--------------------------------------------------  238 (325)
T ss_pred             ChhhcccccHHHHHHH------------HH--------------------------------------------------
Confidence            111     11111100            00                                                  


Q ss_pred             HHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC--CCCHHH
Q psy12150        339 CLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSAS--SLSDKQ  416 (456)
Q Consensus       339 ~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~--~~~~~~  416 (456)
                                                          .............+...|++..+....++.......  ......
T Consensus       239 ------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  282 (325)
T COG0470         239 ------------------------------------NKFLEALEKLWLLLLLEGLLGEDLLDQLQRELLKLDKALIQEEK  282 (325)
T ss_pred             ------------------------------------hcchhHHHHHHHHHHHcCcchhHHHHHHHHHHhhchhhhhhhhH
Confidence                                                011112222333467888888887777777766542  146677


Q ss_pred             HHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHHh
Q psy12150        417 KALILEKLAECNARLQDGASEYIQILDLGSIVIKAN  452 (456)
Q Consensus       417 ~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~~  452 (456)
                      ....+..++..+.++..|..+.+|+.+++..+....
T Consensus       283 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (325)
T COG0470         283 AAELLDALAQARRRLLDGLLALIQLENLLAELLLLQ  318 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            899999999999999999999999999999887763

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.90  E-value=3.3e-21  Score=188.76  Aligned_cols=182  Identities=24%  Similarity=0.354  Sum_probs=147.2

Q ss_pred             Ccccccc-cHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc-------------------ccceEE
Q psy12150         43 TIDDVIE-QQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILE  101 (456)
Q Consensus        43 ~~~~ivg-~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~-------------------~~~~~e  101 (456)
                      .|+.++| |+.+++.|++.+..++++| |||+||+|+||+++++.+++.+.+...                   ..++..
T Consensus         3 ~~~~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~   82 (329)
T PRK08058          3 TWEQLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHL   82 (329)
T ss_pred             cHHHHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEE
Confidence            4778899 9999999999999999999 899999999999999999999876421                   012222


Q ss_pred             eeCC-CCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccc
Q psy12150        102 LNAS-DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCI  180 (456)
Q Consensus       102 ~n~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl  180 (456)
                      +... ...+.+.+++.+..+...+..         +++||+||||+|.|+.+++++|+++||+|+++++||++++.+.++
T Consensus        83 i~~~~~~i~id~ir~l~~~~~~~~~~---------~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~l  153 (329)
T PRK08058         83 VAPDGQSIKKDQIRYLKEEFSKSGVE---------SNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQI  153 (329)
T ss_pred             eccccccCCHHHHHHHHHHHhhCCcc---------cCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhC
Confidence            2221 224567777777666654433         277899999999999999999999999999999999999999999


Q ss_pred             cccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        181 IQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ  240 (456)
Q Consensus       181 ~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~  240 (456)
                      .++++|||..++|.+++.+++..++..    +|  ++++....++..+ |+++.++..++
T Consensus       154 l~TIrSRc~~i~~~~~~~~~~~~~L~~----~g--i~~~~~~~l~~~~-g~~~~A~~l~~  206 (329)
T PRK08058        154 LPTILSRCQVVEFRPLPPESLIQRLQE----EG--ISESLATLLAGLT-NSVEEALALSE  206 (329)
T ss_pred             cHHHHhhceeeeCCCCCHHHHHHHHHH----cC--CChHHHHHHHHHc-CCHHHHHHHhc
Confidence            999999999999999999999888863    44  6666666666664 78888877654

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.89  E-value=2.8e-22  Score=207.69  Aligned_cols=231  Identities=25%  Similarity=0.359  Sum_probs=173.4

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCC---cc--ccceEEeeCCC
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD---MY--RERILELNASD  106 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~---~~--~~~~~e~n~~~  106 (456)
                      +.||.++|||.+|++++|++..++.++..+......+++|+||||||||++|+++++.....   .+  ...++++|+..
T Consensus        52 ~~~~~~~~rp~~f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~  131 (531)
T TIGR02902        52 TEPLSEKTRPKSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATT  131 (531)
T ss_pred             cchHHHhhCcCCHHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEcccc
Confidence            67999999999999999999999999988877777789999999999999999998754321   11  24688888764


Q ss_pred             CcCh-HHHHHH-HHH----HHHhh-ccCCC--CCCC----CCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc--------
Q psy12150        107 DRGI-QVIRDK-VKT----FAQQT-ASGFN--QDGK----PCPPFKIVILDEADSMTHAAQAALRRTMEKET--------  165 (456)
Q Consensus       107 ~~~~-~~i~~~-l~~----~~~~~-~~~~~--~~~~----~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~--------  165 (456)
                      .... ..+.+. +..    ..... .++..  +..+    ..++..++||||++.|+...|+.|++.|++..        
T Consensus       132 ~~~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~~~~~  211 (531)
T TIGR02902       132 ARFDERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAYY  211 (531)
T ss_pred             ccCCccccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCCHHHHHHHHHHHHhCeeeeccccc
Confidence            2110 111110 000    00000 00000  0000    01355699999999999999999999997521        


Q ss_pred             --------------------CcceEEEEe-cCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Q psy12150        166 --------------------KSTRFCLIC-NYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETL  224 (456)
Q Consensus       166 --------------------~~~~lIl~~-~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L  224 (456)
                                          ..+++|++| +.+..+.+++++||..+.|++++.+++..+++..+++.++.+++++++.|
T Consensus       212 ~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrsR~~~I~f~pL~~eei~~Il~~~a~k~~i~is~~al~~I  291 (531)
T TIGR02902       212 NSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRSRCVEIFFRPLLDEEIKEIAKNAAEKIGINLEKHALELI  291 (531)
T ss_pred             cccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhhhhheeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHH
Confidence                                123555554 46788999999999999999999999999999999999999999999998


Q ss_pred             HHHcCCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCC
Q psy12150        225 VETSGGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       225 ~~~s~gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~~~  263 (456)
                      ..++. |.|.+.+.++.++.++   +...|+.+|+..++...
T Consensus       292 ~~y~~-n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~~~  332 (531)
T TIGR02902       292 VKYAS-NGREAVNIVQLAAGIALGEGRKRILAEDIEWVAENG  332 (531)
T ss_pred             HHhhh-hHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhCCc
Confidence            88765 8999999999987766   34579999999998744

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.

>KOG1969|consensus

Probab=99.89  E-value=1.9e-21  Score=196.74  Aligned_cols=220  Identities=27%  Similarity=0.445  Sum_probs=177.3

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHhc--------------------------------CCCCe--EEEECCCC
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG--------------------------------ADLPH--FLFYGPPG   76 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~--------------------------------~~~~~--~Ll~G~~G   76 (456)
                      +..+|+++|+|+.|.|++|.+..-+.+..|++.                                ++++.  +||+||||
T Consensus       257 h~kLWVdky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppG  336 (877)
T KOG1969|consen  257 HDKLWVDKYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPG  336 (877)
T ss_pred             CcceeecccChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCC
Confidence            445999999999999999999888888888752                                22333  99999999


Q ss_pred             CcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHH
Q psy12150         77 TGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAA  156 (456)
Q Consensus        77 ~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~  156 (456)
                      .||||+|+.+|++.+.     .++|+|++|.+....+.+++..+.+..... ...++|.    ++||||+|.-.....+.
T Consensus       337 lGKTTLAHViAkqaGY-----sVvEINASDeRt~~~v~~kI~~avq~~s~l-~adsrP~----CLViDEIDGa~~~~Vdv  406 (877)
T KOG1969|consen  337 LGKTTLAHVIAKQAGY-----SVVEINASDERTAPMVKEKIENAVQNHSVL-DADSRPV----CLVIDEIDGAPRAAVDV  406 (877)
T ss_pred             CChhHHHHHHHHhcCc-----eEEEecccccccHHHHHHHHHHHHhhcccc-ccCCCcc----eEEEecccCCcHHHHHH
Confidence            9999999999998643     799999999999999999999887765432 1223444    89999999998888888


Q ss_pred             HHHHHHhc------cC---------------cceEEEEecCc-ccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCC
Q psy12150        157 LRRTMEKE------TK---------------STRFCLICNYV-SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESV  214 (456)
Q Consensus       157 Ll~~le~~------~~---------------~~~lIl~~~~~-~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~  214 (456)
                      ++..+...      +.               .-.+|++||+. .--..+|+--+..+.|.+++..-+.+.|+.+|.++|+
T Consensus       407 ilslv~a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLYaPaLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE~m  486 (877)
T KOG1969|consen  407 ILSLVKATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLYAPALRPLRPFAEIIAFVPPSQSRLVERLNEICHRENM  486 (877)
T ss_pred             HHHHHHhhcchhhcCcccchhhhhhhccccccCCEEEEecCccchhhhhcccceEEEEecCCChhHHHHHHHHHHhhhcC
Confidence            88877521      10               12366778764 3345667888899999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhC--CCCCCHHHHHHHh
Q psy12150        215 MCDFKALETLVETSGGDMRRAITCLQSCARLKG--GEGIVNEDVLEVT  260 (456)
Q Consensus       215 ~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~--~~~It~~~v~~~~  260 (456)
                      ..+..++..|++.+.+|+|..+|.||.++..+.  ...+...++.+..
T Consensus       487 r~d~~aL~~L~el~~~DIRsCINtLQfLa~~~~r~ds~i~~~~i~a~~  534 (877)
T KOG1969|consen  487 RADSKALNALCELTQNDIRSCINTLQFLASNVDRRDSSISVKLICAKN  534 (877)
T ss_pred             CCCHHHHHHHHHHhcchHHHHHHHHHHHHHhcccccccchhhhhhhhh
Confidence            999999999999999999999999999988652  2346666665543

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.89  E-value=2.8e-22  Score=194.01  Aligned_cols=187  Identities=20%  Similarity=0.363  Sum_probs=148.7

Q ss_pred             CcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc-------------ccceEEeeCC---
Q psy12150         43 TIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------RERILELNAS---  105 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~-------------~~~~~e~n~~---  105 (456)
                      .|++++||+.+++.+.+.++.++.+| |||+||+|+||+++|.++++.+.+...             ..++..+...   
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~   81 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQH   81 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccc
Confidence            48899999999999999999999887 999999999999999999999876420             0112222211   


Q ss_pred             --------------------CCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc
Q psy12150        106 --------------------DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET  165 (456)
Q Consensus       106 --------------------~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~  165 (456)
                                          ....++.+++....+...+..         +++||+|||++|.|+.++.++|+++||+|+
T Consensus        82 ~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~---------~~~kVvII~~ae~m~~~aaNaLLK~LEEPp  152 (314)
T PRK07399         82 QGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLE---------APRKVVVIEDAETMNEAAANALLKTLEEPG  152 (314)
T ss_pred             cccccchhhhhhccccccccccCcHHHHHHHHHHHccCccc---------CCceEEEEEchhhcCHHHHHHHHHHHhCCC
Confidence                                011234555544444333333         378999999999999999999999999999


Q ss_pred             CcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy12150        166 KSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSC  242 (456)
Q Consensus       166 ~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~  242 (456)
                       .++||++++.+.++.++++|||+.++|.+++.+++.+||...+..++..   .....++..++|+++.+++.++..
T Consensus       153 -~~~fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~~~---~~~~~l~~~a~Gs~~~al~~l~~~  225 (314)
T PRK07399        153 -NGTLILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEILN---INFPELLALAQGSPGAAIANIEQL  225 (314)
T ss_pred             -CCeEEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccccch---hHHHHHHHHcCCCHHHHHHHHHHH
Confidence             7889999999999999999999999999999999999999876433322   235678999999999999988654

>TIGR01128 holA DNA polymerase III, delta subunit

Probab=99.89  E-value=8.8e-21  Score=184.70  Aligned_cols=277  Identities=14%  Similarity=0.107  Sum_probs=214.0

Q ss_pred             HHHHHHHHhcCC-ccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-HHHHHHHH
Q psy12150         82 TMIAACHQLFGD-MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-AAQAALRR  159 (456)
Q Consensus        82 ~a~~l~~~l~~~-~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-~~~~~Ll~  159 (456)
                      .+.++++.+..+ ..+++++.+++.+. ..+.+   ...+...+.+         +++++|+|++++.+.. ...+.|.+
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~e~-~~~~l---~~~~~~~slf---------~~~kliii~~~~~~~~~~~~~~L~~   69 (302)
T TIGR01128         3 AADAIRAAALAQGFDEFNVFRIDGEEF-DWNQL---LEEAQTLPLF---------SERRLVELRNPEGKPGAKGLKALEE   69 (302)
T ss_pred             HHHHHHHHHHhCCCchheeeeeccCCC-CHHHH---HHHhhccCcc---------cCCeEEEEECCCCCCCHHHHHHHHH
Confidence            355566655433 23467787777652 22322   2333333333         2678999999999864 56788999


Q ss_pred             HHHhccCcceEEEEecCcc---ccccccc--CCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHH
Q psy12150        160 TMEKETKSTRFCLICNYVS---CIIQPLT--SRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRR  234 (456)
Q Consensus       160 ~le~~~~~~~lIl~~~~~~---kl~~~l~--~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~  234 (456)
                      +++++++++++|+.++...   ++.+.+.  ++|..+.|.+++..++..|+...+++.|+.+++++++.|+..++||++.
T Consensus        70 ~l~~~~~~~~~i~~~~~~~~~~~~~k~~~~~~~~~~i~~~~~~~~~~~~~i~~~~~~~g~~i~~~a~~~l~~~~~~d~~~  149 (302)
T TIGR01128        70 YLANPPPDTLLLIEAPKLDKRKKLTKWLKALKNAQIVECKTPKEQELPRWIQARLKKLGLRIDPDAVQLLAELVEGNLLA  149 (302)
T ss_pred             HHhcCCCCEEEEEecCCCCHhHHHHHHHHHhcCeeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCcHHHH
Confidence            9999988888888876432   2223333  4899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHH
Q psy12150        235 AITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVML  307 (456)
Q Consensus       235 ~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~  307 (456)
                      +.+++++++.|.+++.||.++|..++....+.++|+++++   ++..+++..++.++.+|++|..++    ++|+.++  
T Consensus       150 l~~el~KL~~~~~~~~It~e~I~~~~~~~~~~~if~l~dal~~~~~~~a~~~l~~l~~~~~~~~~il~~l~~~~~~L~--  227 (302)
T TIGR01128       150 IAQELEKLALYAPDGKITLEDVEEAVSDSARFNVFDLTDALLEGKAARALRILKGLLGEGEEPLILLALLQRQLRLLL--  227 (302)
T ss_pred             HHHHHHHHHhhCCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHH--
Confidence            9999999999987678999999999999999999999999   899999999999999999998877    5556655  


Q ss_pred             HhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHH
Q psy12150        308 ASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIED  387 (456)
Q Consensus       308 ~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~  387 (456)
                                                                                                  .++.
T Consensus       228 ----------------------------------------------------------------------------~~k~  231 (302)
T TIGR01128       228 ----------------------------------------------------------------------------QLKR  231 (302)
T ss_pred             ----------------------------------------------------------------------------HHHH
Confidence                                                                                        3444


Q ss_pred             HHHcCCCHHHHHHHH-------HHHHhcCCCCCHHHHHHHHHHHHHHHhhhh-c-CCChhHHHHHHHHHHH
Q psy12150        388 LILEAYSATQLFDQF-------HDIVMSASSLSDKQKALILEKLAECNARLQ-D-GASEYIQILDLGSIVI  449 (456)
Q Consensus       388 l~~~g~s~~di~~~l-------~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~-~-g~~~~~ql~~l~~~~~  449 (456)
                      +..+|++..++...+       ..+......++.....+++..|.++|+.++ + +.+..+-+..++..+|
T Consensus       232 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~s~~~L~~~l~~l~~~d~~~K~~~~~~~~~~le~~i~~~~  302 (302)
T TIGR01128       232 LAQQGGPLAQLASKLGIWPYRRKLALKALRRLSLAKLEQALQELAEADLQLKGTGGGDPWLALERLLLKLA  302 (302)
T ss_pred             HHHcCCCHHHHHHHcCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHHhC
Confidence            455566655555543       122223347899999999999999999999 3 5777777777776653

subunit around DNA forming a DNA sliding clamp.

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=99.88  E-value=2.8e-20  Score=181.44  Aligned_cols=177  Identities=25%  Similarity=0.313  Sum_probs=148.3

Q ss_pred             cHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc-------------------ccceEEeeCC---C
Q psy12150         50 QQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILELNAS---D  106 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~-------------------~~~~~e~n~~---~  106 (456)
                      ++..-+.+.+.+.+++.+| +||+||+|+||+++|.++++.+.+...                   ..++..+...   .
T Consensus         7 l~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~   86 (334)
T PRK07993          7 LRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKS   86 (334)
T ss_pred             ChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccc
Confidence            4455678899999999999 999999999999999999999976211                   1134444332   2


Q ss_pred             CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccC
Q psy12150        107 DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTS  186 (456)
Q Consensus       107 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~  186 (456)
                      ..+++.+++....+...+..+         ++||+|||++|.|+.++.++|++.||+|++.++||++++.+.++.++++|
T Consensus        87 ~I~idqiR~l~~~~~~~~~~g---------~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrS  157 (334)
T PRK07993         87 SLGVDAVREVTEKLYEHARLG---------GAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRS  157 (334)
T ss_pred             cCCHHHHHHHHHHHhhccccC---------CceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHh
Confidence            357788888877777665543         78999999999999999999999999999999999999999999999999


Q ss_pred             CceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        187 RCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ  240 (456)
Q Consensus       187 r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~  240 (456)
                      ||+.+.|++++.+++..||...     ..++++.+..++..++|++..++..++
T Consensus       158 RCq~~~~~~~~~~~~~~~L~~~-----~~~~~~~a~~~~~la~G~~~~Al~l~~  206 (334)
T PRK07993        158 RCRLHYLAPPPEQYALTWLSRE-----VTMSQDALLAALRLSAGAPGAALALLQ  206 (334)
T ss_pred             ccccccCCCCCHHHHHHHHHHc-----cCCCHHHHHHHHHHcCCCHHHHHHHhc
Confidence            9999999999999999999742     247777788899999999999988774

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.88  E-value=2.1e-21  Score=191.48  Aligned_cols=189  Identities=22%  Similarity=0.348  Sum_probs=153.6

Q ss_pred             cCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccc---------------------
Q psy12150         39 YRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR---------------------   96 (456)
Q Consensus        39 y~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~---------------------   96 (456)
                      .+|+++++++||+.+++.|.+.+.+++.+| +||+||+|+||+++|.++++.+.++...                     
T Consensus        13 ~~P~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c   92 (365)
T PRK07471         13 PHPRETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVA   92 (365)
T ss_pred             CCCCchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHH
Confidence            689999999999999999999999999999 9999999999999999999999753210                     


Q ss_pred             --------cceEEeeC--CC-------CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHH
Q psy12150         97 --------ERILELNA--SD-------DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRR  159 (456)
Q Consensus        97 --------~~~~e~n~--~~-------~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~  159 (456)
                              .++..+..  .+       ...++.+++....+...+..         ++++||||||+|.++.+.++.|++
T Consensus        93 ~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~---------~~~kVviIDead~m~~~aanaLLK  163 (365)
T PRK07471         93 RRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAE---------GGWRVVIVDTADEMNANAANALLK  163 (365)
T ss_pred             HHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCccc---------CCCEEEEEechHhcCHHHHHHHHH
Confidence                    02223322  11       12345555554443322221         267899999999999999999999


Q ss_pred             HHHhccCcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q psy12150        160 TMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL  239 (456)
Q Consensus       160 ~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L  239 (456)
                      .+++++..++||++++.+..+.+.+++||..+.|.+++.+++..||....    ...+++.+..++..++|+++.+++.+
T Consensus       164 ~LEepp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~----~~~~~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        164 VLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAG----PDLPDDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             HHhcCCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhc----ccCCHHHHHHHHHHcCCCHHHHHHHh
Confidence            99999999999999999999999999999999999999999999998643    34556666889999999999999887


Q ss_pred             H
Q psy12150        240 Q  240 (456)
Q Consensus       240 ~  240 (456)
                      +
T Consensus       240 ~  240 (365)
T PRK07471        240 G  240 (365)
T ss_pred             c
Confidence            5

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.88  E-value=1.3e-21  Score=177.07  Aligned_cols=165  Identities=28%  Similarity=0.433  Sum_probs=135.7

Q ss_pred             HHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCC---------------------ccccceEEeeCCCCcChHH
Q psy12150         55 SVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGD---------------------MYRERILELNASDDRGIQV  112 (456)
Q Consensus        55 ~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~---------------------~~~~~~~e~n~~~~~~~~~  112 (456)
                      +.|.+.++.++.++ ||||||+|+|||++++.+++.+.+.                     ..++.++..+.. ..+.+.
T Consensus         2 ~~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~-~~~~~~   80 (188)
T TIGR00678         2 QQLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQ-SIKVDQ   80 (188)
T ss_pred             hHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccC-cCCHHH
Confidence            45788888999888 9999999999999999999998753                     111122222221 245667


Q ss_pred             HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEE
Q psy12150        113 IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR  192 (456)
Q Consensus       113 i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~  192 (456)
                      +++.+..+...+..         +++++|||||+|.++.+.++.|+++|+++++.++||++++...++.+++++||..++
T Consensus        81 i~~i~~~~~~~~~~---------~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~  151 (188)
T TIGR00678        81 VRELVEFLSRTPQE---------SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLP  151 (188)
T ss_pred             HHHHHHHHccCccc---------CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEee
Confidence            77666655544433         278899999999999999999999999999999999999988899999999999999


Q ss_pred             ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHH
Q psy12150        193 FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRA  235 (456)
Q Consensus       193 f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~  235 (456)
                      |.+++.+++.+|+...    |  +++++++.++..++||+|.+
T Consensus       152 ~~~~~~~~~~~~l~~~----g--i~~~~~~~i~~~~~g~~r~~  188 (188)
T TIGR00678       152 FPPLSEEALLQWLIRQ----G--ISEEAAELLLALAGGSPGAA  188 (188)
T ss_pred             CCCCCHHHHHHHHHHc----C--CCHHHHHHHHHHcCCCcccC
Confidence            9999999999999876    4  78999999999999999864

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.88  E-value=3.3e-21  Score=187.96  Aligned_cols=201  Identities=18%  Similarity=0.209  Sum_probs=157.6

Q ss_pred             CCcccccccHHHHHHHHHHHh-----cCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLS-----GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK  116 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~-----~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~  116 (456)
                      ++|++++|+++.++.|..++.     .+.+++++|+||||+|||++++++++.+..+     +...+.........+...
T Consensus         1 ~~~~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~-----~~~~~~~~~~~~~~l~~~   75 (305)
T TIGR00635         1 KLLAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVN-----LKITSGPALEKPGDLAAI   75 (305)
T ss_pred             CCHHHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC-----EEEeccchhcCchhHHHH
Confidence            479999999999999999886     3445669999999999999999999987542     333333322223333333


Q ss_pred             HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc------------------CcceEEEEecCcc
Q psy12150        117 VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------------------KSTRFCLICNYVS  178 (456)
Q Consensus       117 l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~------------------~~~~lIl~~~~~~  178 (456)
                      +....               ...++||||++.+.+..++.|+..+++..                  +..++|.+++...
T Consensus        76 l~~~~---------------~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~  140 (305)
T TIGR00635        76 LTNLE---------------EGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAG  140 (305)
T ss_pred             HHhcc---------------cCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCcc
Confidence            22210               22399999999999988888888876432                  2256777777778


Q ss_pred             cccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---CCCCCCHH
Q psy12150        179 CIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK---GGEGIVNE  254 (456)
Q Consensus       179 kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~---~~~~It~~  254 (456)
                      ++.+++.+||. .++|.+++.+++.++++..+...+..+++++++.|++.++|++|.+.+.++.+..++   +...|+.+
T Consensus       141 ~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~  220 (305)
T TIGR00635       141 MLTSPLRDRFGIILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRD  220 (305)
T ss_pred             ccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHH
Confidence            88889999995 679999999999999999999999999999999999999999999999998876554   34669999


Q ss_pred             HHHHHhCC
Q psy12150        255 DVLEVTGV  262 (456)
Q Consensus       255 ~v~~~~~~  262 (456)
                      .+...+..
T Consensus       221 ~v~~~l~~  228 (305)
T TIGR00635       221 IALKALEM  228 (305)
T ss_pred             HHHHHHHH
Confidence            98877643

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.

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

Probab=99.88  E-value=4.4e-21  Score=175.10  Aligned_cols=209  Identities=19%  Similarity=0.224  Sum_probs=165.8

Q ss_pred             cchhccCCCCcccccccHHHHHHHHHHHh-----cCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLS-----GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        34 ~w~eky~P~~~~~ivg~~~~~~~l~~~l~-----~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      ..-...||++|++++||+++++.+.-+++     +..+.|+|||||||.||||+|..++++++.+     +...++.-..
T Consensus        15 ~~e~~lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn-----~k~tsGp~le   89 (332)
T COG2255          15 KIERSLRPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVN-----LKITSGPALE   89 (332)
T ss_pred             hhhcccCcccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCC-----eEeccccccc
Confidence            34557899999999999999999987774     3446679999999999999999999998642     2222222222


Q ss_pred             ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc------------------CcceE
Q psy12150        109 GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------------------KSTRF  170 (456)
Q Consensus       109 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~------------------~~~~l  170 (456)
                      ...++...+..+               .+..|+||||+|++++...+.|...||++.                  +...+
T Consensus        90 K~gDlaaiLt~L---------------e~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTL  154 (332)
T COG2255          90 KPGDLAAILTNL---------------EEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTL  154 (332)
T ss_pred             ChhhHHHHHhcC---------------CcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeE
Confidence            233333333222               145699999999999999999999998742                  12336


Q ss_pred             EEEecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---
Q psy12150        171 CLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK---  246 (456)
Q Consensus       171 Il~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~---  246 (456)
                      |-+++....+..+|+.|+. ..++.-++.+++..++.+-+..-++.+++++..+|++++.|.+|-+.+.|..+..++   
T Consensus       155 IGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRGTPRIAnRLLrRVRDfa~V~  234 (332)
T COG2255         155 IGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEIARRSRGTPRIANRLLRRVRDFAQVK  234 (332)
T ss_pred             eeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCCChHHHHHHHHhccCCcHHHHHHHHHHHHHHHHh
Confidence            6667777888999999987 788899999999999999999999999999999999999999999999999987777   


Q ss_pred             CCCCCCHHHHHHHhCC
Q psy12150        247 GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       247 ~~~~It~~~v~~~~~~  262 (456)
                      +...|+.+-+..++..
T Consensus       235 ~~~~I~~~ia~~aL~~  250 (332)
T COG2255         235 GDGDIDRDIADKALKM  250 (332)
T ss_pred             cCCcccHHHHHHHHHH
Confidence            5678888777666543

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.87  E-value=4.8e-19  Score=172.43  Aligned_cols=171  Identities=22%  Similarity=0.314  Sum_probs=139.4

Q ss_pred             HHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc-------------------ccceEEeeCC---CCcChHHH
Q psy12150         57 LKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILELNAS---DDRGIQVI  113 (456)
Q Consensus        57 l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~-------------------~~~~~e~n~~---~~~~~~~i  113 (456)
                      .++.+..++.+| |||+||+|+||+++|+.+++.+.+...                   ..++..+...   ...+++.+
T Consensus        12 ~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~i   91 (328)
T PRK05707         12 WQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQV   91 (328)
T ss_pred             HHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHH
Confidence            344555688888 999999999999999999999986321                   1134444332   24577888


Q ss_pred             HHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEEe
Q psy12150        114 RDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRF  193 (456)
Q Consensus       114 ~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f  193 (456)
                      ++....+...+..+         ++||+|||++|.|+.++.++|++.||+|+++++||++++.+..+.++++|||+.+.|
T Consensus        92 R~l~~~~~~~~~~~---------~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~  162 (328)
T PRK05707         92 RELVSFVVQTAQLG---------GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQAC  162 (328)
T ss_pred             HHHHHHHhhccccC---------CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeC
Confidence            88777666555443         788999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        194 KPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ  240 (456)
Q Consensus       194 ~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~  240 (456)
                      .+++.+++.+||.....    ..+++....++..++|++..++..++
T Consensus       163 ~~~~~~~~~~~L~~~~~----~~~~~~~~~~l~la~Gsp~~A~~l~~  205 (328)
T PRK05707        163 PLPSNEESLQWLQQALP----ESDERERIELLTLAGGSPLRALQLHE  205 (328)
T ss_pred             CCcCHHHHHHHHHHhcc----cCChHHHHHHHHHcCCCHHHHHHHHC
Confidence            99999999999986531    34667777888999999998887653

>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]

Probab=99.86  E-value=4.5e-19  Score=174.28  Aligned_cols=299  Identities=19%  Similarity=0.204  Sum_probs=224.0

Q ss_pred             HHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCC
Q psy12150         56 VLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKP  134 (456)
Q Consensus        56 ~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~  134 (456)
                      ++...+.+++.++ |++||+.-.-....+..+.+....+.........+..+    .+....+......+.++       
T Consensus         5 ~~~~~l~~~~~~~v~ll~G~d~~l~~e~~~~i~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~s~~lF~-------   73 (334)
T COG1466           5 ELAKHLKKKNLMPVYLLYGEDEGLLEEAADAILKRALADGFDENYSFFDDSE----LDWADLLSELESPSLFG-------   73 (334)
T ss_pred             HHHHHHhcCCCccEEEEecCChhHHHHHHHHHHHHHhccchhhHHhhccccc----CCHHHHHHHhhcccccc-------
Confidence            4556666654444 99999998888888888888776333333333322222    12233344444444443       


Q ss_pred             CCCcEEEEEcCCCCcc-HHHHHHHHHHHHhcc-CcceEEEEecCc---ccccc---cccCCceEEEecCCCHHHHHHHHH
Q psy12150        135 CPPFKIVILDEADSMT-HAAQAALRRTMEKET-KSTRFCLICNYV---SCIIQ---PLTSRCSKFRFKPLAENTMLTRLQ  206 (456)
Q Consensus       135 ~~~~~iviIDE~d~l~-~~~~~~Ll~~le~~~-~~~~lIl~~~~~---~kl~~---~l~~r~~~i~f~~~~~~el~~~l~  206 (456)
                        ++++|+|+...... .+....+......++ ..+++++.++..   .+..+   .+.. +..+.+.+++..++.+|+.
T Consensus        74 --~~~~v~l~~~~~~~~~~~~~~l~~~~~~~p~~~~~l~~~~~kl~~~~~~~k~~~~~~~-~~~~~~~~~~~~~l~~~i~  150 (334)
T COG1466          74 --EKRLVVLKNAEKKPNKDKNLALLELAALLPSTDLLLLVESNKLDKAKKLTKWLKKLAK-AVVVECKPLDEAELPQWIK  150 (334)
T ss_pred             --CCeeEEEECCCCCcCchhHHHHHHHHcCCCCCCEEEEEecCCcchHHHHHHHHHHhcc-CceEecCCCCHHHHHHHHH
Confidence              66799999998876 344444555555555 445555444432   22323   3333 6689999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHH
Q psy12150        207 YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKY  283 (456)
Q Consensus       207 ~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~  283 (456)
                      .++++.|+.+++++++.|+...+||++.+.+++++++.|++++.||.++|..++......++|+++++   |+..+|...
T Consensus       151 ~~~~~~~l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~~~~f~l~dail~g~~~~a~~~  230 (334)
T COG1466         151 KRAKELGLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAEFNIFDLADALLKGDVKKALRL  230 (334)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhccccCCHHHHHHHHHCCCHHHHHHH
Confidence            99999999999999999999999999999999999999997669999999999999999999999999   999999999


Q ss_pred             HHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchh
Q psy12150        284 IEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLE  359 (456)
Q Consensus       284 ~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~  359 (456)
                      +++|+.+|++|+.|+    +||+.++                                                      
T Consensus       231 l~~L~~~ge~p~~il~~l~~~f~~~~------------------------------------------------------  256 (334)
T COG1466         231 LRDLLLEGEEPLKLLAALTRQFRLLL------------------------------------------------------  256 (334)
T ss_pred             HHHHHHcCCcHHHHHHHHHHHHHHHH------------------------------------------------------
Confidence            999999999999987    6777555                                                      


Q ss_pred             cccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHH---------HHHHhcCCCCCHHHHHHHHHHHHHHHhh
Q psy12150        360 VTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQF---------HDIVMSASSLSDKQKALILEKLAECNAR  430 (456)
Q Consensus       360 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l---------~~~~~~~~~~~~~~~~~~~~~l~~~~~~  430 (456)
                                              .++.+..+|++...++..+         .....  ..++.....+.+..++++|+.
T Consensus       257 ------------------------~l~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~--~r~s~~~l~~~l~~l~~~d~~  310 (334)
T COG1466         257 ------------------------QLKALAEKGKSLQQAAKSLGIPYRRKKLFKKAA--RRLSLKQLLKALRLLAQLDYQ  310 (334)
T ss_pred             ------------------------HHHHHHHcCcCHHHHHHHhcCcHHHHHHHHHHH--HHcCHHHHHHHHHHHHHHHHH
Confidence                                    5777788888888888887         22222  248999999999999999999


Q ss_pred             hhcCCChhH-HHHHHHHHH
Q psy12150        431 LQDGASEYI-QILDLGSIV  448 (456)
Q Consensus       431 l~~g~~~~~-ql~~l~~~~  448 (456)
                      +++|..++. -+...+..+
T Consensus       311 ~K~~~~d~~~~l~~~l~~~  329 (334)
T COG1466         311 IKTGYGDPVWALELFLLRL  329 (334)
T ss_pred             HhcCCccchHHHHHHHHHH
Confidence            999986444 444444443

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=99.86  E-value=3.9e-19  Score=171.69  Aligned_cols=178  Identities=22%  Similarity=0.303  Sum_probs=145.1

Q ss_pred             ccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc-------------------ccceEEeeC--CC
Q psy12150         49 EQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILELNA--SD  106 (456)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~-------------------~~~~~e~n~--~~  106 (456)
                      .+....+.+.+.+.+++.+| |||+||+|+||+++|+.+++.+.+...                   ..++..+..  ..
T Consensus         6 W~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~   85 (325)
T PRK06871          6 WLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNK   85 (325)
T ss_pred             chHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCC
Confidence            34555678999999999999 999999999999999999999976321                   113444433  23


Q ss_pred             CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccC
Q psy12150        107 DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTS  186 (456)
Q Consensus       107 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~  186 (456)
                      ..+++.+++....+...+..+         ++||+|||++|.|+.++.++|++.||+|+++++||++++.+.++.++++|
T Consensus        86 ~I~id~iR~l~~~~~~~~~~g---------~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~S  156 (325)
T PRK06871         86 DIGVDQVREINEKVSQHAQQG---------GNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYS  156 (325)
T ss_pred             CCCHHHHHHHHHHHhhccccC---------CceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHh
Confidence            457788888776666555443         78899999999999999999999999999999999999999999999999


Q ss_pred             CceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        187 RCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ  240 (456)
Q Consensus       187 r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~  240 (456)
                      ||+.+.|.+++.+++.+||....     ..++..+..++..++|.+..++..++
T Consensus       157 RC~~~~~~~~~~~~~~~~L~~~~-----~~~~~~~~~~~~l~~g~p~~A~~~~~  205 (325)
T PRK06871        157 RCQTWLIHPPEEQQALDWLQAQS-----SAEISEILTALRINYGRPLLALTFLE  205 (325)
T ss_pred             hceEEeCCCCCHHHHHHHHHHHh-----ccChHHHHHHHHHcCCCHHHHHHHhh
Confidence            99999999999999999998653     23444566778889999987766653

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=99.85  E-value=3.5e-18  Score=163.57  Aligned_cols=175  Identities=14%  Similarity=0.192  Sum_probs=140.8

Q ss_pred             HHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCC--------ccccceEEeeC-CCCcChHHHHHHHHHH
Q psy12150         51 QEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGD--------MYRERILELNA-SDDRGIQVIRDKVKTF  120 (456)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~--------~~~~~~~e~n~-~~~~~~~~i~~~l~~~  120 (456)
                      ..+++.+++.++.++.+| |||+|++|+||+.+++.+++.+.+.        ..+.++..++. ....+.+.+++....+
T Consensus         2 ~~~~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir~l~~~~   81 (299)
T PRK07132          2 NNWIKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFLSAINKL   81 (299)
T ss_pred             chHHHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHHHHHHHh
Confidence            356788999999999999 9999999999999999999998542        22334455542 1234566777666665


Q ss_pred             HHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEEecCCCHHH
Q psy12150        121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENT  200 (456)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~e  200 (456)
                      ...+...        +++||+|||+++.++.+++++|+++||+||++++||++++.+.++.++++|||+.++|.+++.++
T Consensus        82 ~~~~~~~--------~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~  153 (299)
T PRK07132         82 YFSSFVQ--------SQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQK  153 (299)
T ss_pred             ccCCccc--------CCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHH
Confidence            4443221        27889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        201 MLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ  240 (456)
Q Consensus       201 l~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~  240 (456)
                      +..||...    +  ++++....++..++| +.+++..+.
T Consensus       154 l~~~l~~~----~--~~~~~a~~~a~~~~~-~~~a~~~~~  186 (299)
T PRK07132        154 ILAKLLSK----N--KEKEYNWFYAYIFSN-FEQAEKYIN  186 (299)
T ss_pred             HHHHHHHc----C--CChhHHHHHHHHcCC-HHHHHHHHh
Confidence            99998743    2  677777778877774 888888753

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.83  E-value=2e-19  Score=187.12  Aligned_cols=211  Identities=20%  Similarity=0.287  Sum_probs=138.7

Q ss_pred             CCCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-----EEEECCCCCcHHHHHHHHHHHhcCCccc-cceE-E
Q psy12150         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-----FLFYGPPGTGKTSTMIAACHQLFGDMYR-ERIL-E  101 (456)
Q Consensus        29 ~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-----~Ll~G~~G~GKT~~a~~l~~~l~~~~~~-~~~~-e  101 (456)
                      .+...||++||+|+++++++|+++.+..++.|+.....+.     ++|+||+|+|||++++.+++.+...... .+.+ .
T Consensus        68 ~~~~~pW~eKyrP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~npv~~  147 (637)
T TIGR00602        68 LDGNEPWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLP  147 (637)
T ss_pred             ccccCchHHHhCCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHhhhhhh
Confidence            3456799999999999999999999999999998655432     9999999999999999999987543211 0100 0


Q ss_pred             eeCCC---------------CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH---HHHHHHH--HH
Q psy12150        102 LNASD---------------DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA---AQAALRR--TM  161 (456)
Q Consensus       102 ~n~~~---------------~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~---~~~~Ll~--~l  161 (456)
                      .+..+               ....+.+...+....... ...  .+.....++||+|||++.+...   .+..+++  +.
T Consensus       148 ~~~~~~~~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~-~~~--g~~~~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~  224 (637)
T TIGR00602       148 DFQKNDHKVTLSLESCFSNFQSQIEVFSEFLLRATNKL-QML--GDDLMTDKKIILVEDLPNQFYRDTRALHEILRWKYV  224 (637)
T ss_pred             cccccccccchhhhhccccccchHHHHHHHHHHHHhhh-ccc--ccccCCceeEEEeecchhhchhhHHHHHHHHHHHhh
Confidence            00000               011122222222211000 000  0001136779999999877543   2333444  33


Q ss_pred             HhccCcceEEEEecCc--------cc-------ccccccC--CceEEEecCCCHHHHHHHHHHHHHHcCCC------C-C
Q psy12150        162 EKETKSTRFCLICNYV--------SC-------IIQPLTS--RCSKFRFKPLAENTMLTRLQYICEQESVM------C-D  217 (456)
Q Consensus       162 e~~~~~~~lIl~~~~~--------~k-------l~~~l~~--r~~~i~f~~~~~~el~~~l~~~~~~~~~~------i-~  217 (456)
                      +.  ..+.+|+++++.        ..       +.+++.+  |+..|.|+|++..++.+.|..++..++..      + +
T Consensus       225 e~--~~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~~p~  302 (637)
T TIGR00602       225 SI--GRCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPK  302 (637)
T ss_pred             cC--CCceEEEEecCCccccccccccccchhcccCHhHhcccceeEEEeCCCCHHHHHHHHHHHHHhhhhccccccccCC
Confidence            32  234455555421        11       2257776  56689999999999999999999876532      2 4


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy12150        218 FKALETLVETSGGDMRRAITCLQSCAR  244 (456)
Q Consensus       218 ~~~l~~L~~~s~gdlr~~~~~L~~~~~  244 (456)
                      +++++.|+..++||+|.|++.||.++.
T Consensus       303 ~~~l~~I~~~s~GDiRsAIn~LQf~~~  329 (637)
T TIGR00602       303 KTSVELLCQGCSGDIRSAINSLQFSSS  329 (637)
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHh
Confidence            689999999999999999999999864

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=99.82  E-value=4.9e-19  Score=170.76  Aligned_cols=177  Identities=23%  Similarity=0.316  Sum_probs=142.7

Q ss_pred             ccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccc----------------cceEEee--CCC---
Q psy12150         49 EQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR----------------ERILELN--ASD---  106 (456)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~----------------~~~~e~n--~~~---  106 (456)
                      .++...+.+...+.+++.+| +||+||+|+||+++|.++++.+.+....                .++..+.  ...   
T Consensus         8 W~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~   87 (319)
T PRK08769          8 WQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGD   87 (319)
T ss_pred             cHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccc
Confidence            45677888999999999999 9999999999999999999998764210                1233332  211   


Q ss_pred             ----CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccc
Q psy12150        107 ----DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQ  182 (456)
Q Consensus       107 ----~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~  182 (456)
                          ..+++.+++....+...+..+         ++||+|||++|.|+.++.++|++.||+|+++++||++++.+.++.+
T Consensus        88 k~~~~I~idqIR~l~~~~~~~p~~g---------~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLp  158 (319)
T PRK08769         88 KLRTEIVIEQVREISQKLALTPQYG---------IAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPA  158 (319)
T ss_pred             cccccccHHHHHHHHHHHhhCcccC---------CcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCch
Confidence                123566666655554444332         6889999999999999999999999999999999999999999999


Q ss_pred             cccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        183 PLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ  240 (456)
Q Consensus       183 ~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~  240 (456)
                      +|+|||+.+.|.+++.+++..||..    .+  ++++.+..++..++|.+..++..++
T Consensus       159 TIrSRCq~i~~~~~~~~~~~~~L~~----~~--~~~~~a~~~~~l~~G~p~~A~~~~~  210 (319)
T PRK08769        159 TIRSRCQRLEFKLPPAHEALAWLLA----QG--VSERAAQEALDAARGHPGLAAQWLR  210 (319)
T ss_pred             HHHhhheEeeCCCcCHHHHHHHHHH----cC--CChHHHHHHHHHcCCCHHHHHHHhc
Confidence            9999999999999999999999974    23  5666677789999999998877763

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.82  E-value=1e-18  Score=163.28  Aligned_cols=200  Identities=15%  Similarity=0.197  Sum_probs=145.2

Q ss_pred             Cccccc--ccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHH
Q psy12150         43 TIDDVI--EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (456)
Q Consensus        43 ~~~~iv--g~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~  120 (456)
                      +|++++  ++...+..+.++......++++||||+|+|||++++++++.+.....  .+.+++......  ...+.++.+
T Consensus        20 ~fd~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~--~v~y~~~~~~~~--~~~~~~~~~   95 (235)
T PRK08084         20 TFASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGR--AVGYVPLDKRAW--FVPEVLEGM   95 (235)
T ss_pred             CccccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCC--eEEEEEHHHHhh--hhHHHHHHh
Confidence            677777  46777888888887666667999999999999999999998764433  333333322110  011111111


Q ss_pred             HHhhccCCCCCCCCCCCcEEEEEcCCCCccH--HHHHHHHHHHHhc--cCcceEEEEecCc-c---cccccccCCc---e
Q psy12150        121 AQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKE--TKSTRFCLICNYV-S---CIIQPLTSRC---S  189 (456)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--~~~~~Ll~~le~~--~~~~~lIl~~~~~-~---kl~~~l~~r~---~  189 (456)
                      .               ...+|+|||++.+..  ..+..|...+...  .....+|++++.+ .   .+.+.|+||+   .
T Consensus        96 ~---------------~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~  160 (235)
T PRK08084         96 E---------------QLSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQ  160 (235)
T ss_pred             h---------------hCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCc
Confidence            1               123899999999864  3344444444332  2234566677643 2   2578999998   6


Q ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh--hCCCCCCHHHHHHHhC
Q psy12150        190 KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL--KGGEGIVNEDVLEVTG  261 (456)
Q Consensus       190 ~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~--~~~~~It~~~v~~~~~  261 (456)
                      ++++.+|+.+++.+++++.+..+|+.++++++++|++.++||+|.+++.++.+...  ..++.||.+.+++++.
T Consensus       161 ~~~l~~~~~~~~~~~l~~~a~~~~~~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it~~~~k~~l~  234 (235)
T PRK08084        161 IYKLQPLSDEEKLQALQLRARLRGFELPEDVGRFLLKRLDREMRTLFMTLDQLDRASITAQRKLTIPFVKEILK  234 (235)
T ss_pred             eeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHc
Confidence            99999999999999999989999999999999999999999999999999997543  3567899999988764

>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=99.82  E-value=2.3e-19  Score=157.65  Aligned_cols=140  Identities=33%  Similarity=0.576  Sum_probs=108.7

Q ss_pred             ccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc------------------ccceEEeeCCCC--
Q psy12150         49 EQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY------------------RERILELNASDD--  107 (456)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~------------------~~~~~e~n~~~~--  107 (456)
                      ||+.+++.|.+.++.++.+| |||+||+|+||+++|..+++.+.+...                  ..++..++....  
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            78999999999999999999 999999999999999999999986432                  235566665543  


Q ss_pred             -cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccC
Q psy12150        108 -RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTS  186 (456)
Q Consensus       108 -~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~  186 (456)
                       ...+.+++....+...+..         +++||+||||+|.|+.+++++|++.||+|+.+++||++++++.++.++++|
T Consensus        81 ~i~i~~ir~i~~~~~~~~~~---------~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~S  151 (162)
T PF13177_consen   81 SIKIDQIREIIEFLSLSPSE---------GKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRS  151 (162)
T ss_dssp             SBSHHHHHHHHHHCTSS-TT---------SSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHT
T ss_pred             hhhHHHHHHHHHHHHHHHhc---------CCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHh
Confidence             4667777555554433322         378999999999999999999999999999999999999999999999999


Q ss_pred             CceEEEecCCC
Q psy12150        187 RCSKFRFKPLA  197 (456)
Q Consensus       187 r~~~i~f~~~~  197 (456)
                      ||..+.|++++
T Consensus       152 Rc~~i~~~~ls  162 (162)
T PF13177_consen  152 RCQVIRFRPLS  162 (162)
T ss_dssp             TSEEEEE----
T ss_pred             hceEEecCCCC
Confidence            99999999875

...

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.82  E-value=3.2e-18  Score=177.93  Aligned_cols=235  Identities=19%  Similarity=0.223  Sum_probs=166.0

Q ss_pred             hccCCCCcccccccHHHHHHHHHHHh----cCCCCe-EEEECCCCCcHHHHHHHHHHHhcC-----CccccceEEeeCCC
Q psy12150         37 EKYRPKTIDDVIEQQEVVSVLKKCLS----GADLPH-FLFYGPPGTGKTSTMIAACHQLFG-----DMYRERILELNASD  106 (456)
Q Consensus        37 eky~P~~~~~ivg~~~~~~~l~~~l~----~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~-----~~~~~~~~e~n~~~  106 (456)
                      ..|.|   +.+.+++..++.|..++.    +....+ ++|+|+||||||.+++.+.+++..     ....+.++++||..
T Consensus       750 ~DYVP---D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~  826 (1164)
T PTZ00112        750 LDVVP---KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMN  826 (1164)
T ss_pred             cccCC---CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCc
Confidence            44666   467899998887776654    333334 579999999999999999988742     11235789999976


Q ss_pred             CcChHHHHHHHHHHH-Hhhc-cCC----------CCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc---cCcceEE
Q psy12150        107 DRGIQVIRDKVKTFA-QQTA-SGF----------NQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE---TKSTRFC  171 (456)
Q Consensus       107 ~~~~~~i~~~l~~~~-~~~~-~~~----------~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~---~~~~~lI  171 (456)
                      ......+...+.... .... .+.          ...........||||||+|.|....++.|+.+++.+   ...+++|
T Consensus       827 Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLI  906 (1164)
T PTZ00112        827 VVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLI  906 (1164)
T ss_pred             cCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEE
Confidence            555544433332111 0000 000          000000012348999999999876677777666543   3346677


Q ss_pred             EEecC---cccccccccCCce--EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH---HcCCCHHHHHHHHHHHH
Q psy12150        172 LICNY---VSCIIQPLTSRCS--KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVE---TSGGDMRRAITCLQSCA  243 (456)
Q Consensus       172 l~~~~---~~kl~~~l~~r~~--~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~---~s~gdlr~~~~~L~~~~  243 (456)
                      .++|.   +..+.+.+++|+.  .+.|+|++.+++.++|..++......+++++++++++   ..+||+|.|+..|+.++
T Consensus       907 GISNdlDLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAg  986 (1164)
T PTZ00112        907 AISNTMDLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAF  986 (1164)
T ss_pred             EecCchhcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHH
Confidence            77775   3566788888876  5999999999999999999986555689999999998   66899999999999998


Q ss_pred             HhhCCCCCCHHHHHHHhCCCCHHHHHHHHcc
Q psy12150        244 RLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV  274 (456)
Q Consensus       244 ~~~~~~~It~~~v~~~~~~~~~~~i~~l~~~  274 (456)
                      ..+++..|+.++|.++......+.+.+.+..
T Consensus       987 EikegskVT~eHVrkAleeiE~srI~e~Ikt 1017 (1164)
T PTZ00112        987 ENKRGQKIVPRDITEATNQLFDSPLTNAINY 1017 (1164)
T ss_pred             hhcCCCccCHHHHHHHHHHHHhhhHHHHHHc
Confidence            8777778999999998876655555555555

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.81  E-value=5.6e-17  Score=157.81  Aligned_cols=168  Identities=21%  Similarity=0.281  Sum_probs=128.5

Q ss_pred             HHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccc--------------------cceEEeeCC------
Q psy12150         53 VVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR--------------------ERILELNAS------  105 (456)
Q Consensus        53 ~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~--------------------~~~~e~n~~------  105 (456)
                      ..+++...  .++.+| |||+||+|+||+++|+.+++.+.+....                    .++..+...      
T Consensus         9 ~~~~l~~~--~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~~   86 (342)
T PRK06964          9 DWNRLQAL--RARLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAEA   86 (342)
T ss_pred             HHHHHHHh--cCCcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccc
Confidence            33444443  457888 9999999999999999999999763210                    122333211      


Q ss_pred             -----------------------CCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHH
Q psy12150        106 -----------------------DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTME  162 (456)
Q Consensus       106 -----------------------~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le  162 (456)
                                             ...+++.+++....+...+..         +++||+|||++|.|+.++.++|++.||
T Consensus        87 ~~~~~~~~~~~~~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~---------~~~kV~iI~~ae~m~~~AaNaLLKtLE  157 (342)
T PRK06964         87 PGAADEAKEADADEGGKKTKAPSKEIKIEQVRALLDFCGVGTHR---------GGARVVVLYPAEALNVAAANALLKTLE  157 (342)
T ss_pred             cccccccccchhhcccccccccccccCHHHHHHHHHHhccCCcc---------CCceEEEEechhhcCHHHHHHHHHHhc
Confidence                                   123456666655544433322         378899999999999999999999999


Q ss_pred             hccCcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q psy12150        163 KETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL  239 (456)
Q Consensus       163 ~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L  239 (456)
                      +|+++++||++++.+.++.++++|||+.+.|.+++.+++.+||...    +  +++.  +.++..++|++..++..+
T Consensus       158 EPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~----~--~~~~--~~~l~~~~Gsp~~Al~~~  226 (342)
T PRK06964        158 EPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ----G--VADA--DALLAEAGGAPLAALALA  226 (342)
T ss_pred             CCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc----C--CChH--HHHHHHcCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999753    3  3332  335777899999888776

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=99.81  E-value=5.8e-17  Score=156.25  Aligned_cols=175  Identities=16%  Similarity=0.272  Sum_probs=140.2

Q ss_pred             ccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc------------------ccceEEeeCC---C
Q psy12150         49 EQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY------------------RERILELNAS---D  106 (456)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~------------------~~~~~e~n~~---~  106 (456)
                      .+....+.+.+.+.+++.+| |||+||+|+||+++|+.+++.+.+...                  ..++..+...   .
T Consensus         7 Wl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~   86 (319)
T PRK06090          7 WLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGK   86 (319)
T ss_pred             cHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCC
Confidence            34556678999999999999 999999999999999999999875321                  1134444432   2


Q ss_pred             CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccC
Q psy12150        107 DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTS  186 (456)
Q Consensus       107 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~  186 (456)
                      ..+++.+++........+..         +++||+|||++|.|+.++.++|++.||+|+++++||++++.+.++.++++|
T Consensus        87 ~I~vdqiR~l~~~~~~~~~~---------~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~S  157 (319)
T PRK06090         87 SITVEQIRQCNRLAQESSQL---------NGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVS  157 (319)
T ss_pred             cCCHHHHHHHHHHHhhCccc---------CCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHh
Confidence            34667777655444444332         378899999999999999999999999999999999999999999999999


Q ss_pred             CceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        187 RCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ  240 (456)
Q Consensus       187 r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~  240 (456)
                      ||+.+.|.+++.+++.+||..    .|..    ....++..++|++..++..++
T Consensus       158 RCq~~~~~~~~~~~~~~~L~~----~~~~----~~~~~l~l~~G~p~~A~~~~~  203 (319)
T PRK06090        158 RCQQWVVTPPSTAQAMQWLKG----QGIT----VPAYALKLNMGSPLKTLAMMK  203 (319)
T ss_pred             cceeEeCCCCCHHHHHHHHHH----cCCc----hHHHHHHHcCCCHHHHHHHhC
Confidence            999999999999999999874    3433    234667889999998887763

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.81  E-value=1.1e-17  Score=167.39  Aligned_cols=227  Identities=19%  Similarity=0.209  Sum_probs=153.8

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHh----cCCCCeEEEECCCCCcHHHHHHHHHHHhcCC----ccccceEEeeC
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLS----GADLPHFLFYGPPGTGKTSTMIAACHQLFGD----MYRERILELNA  104 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~----~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~----~~~~~~~e~n~  104 (456)
                      ..+...|.|.   +++|++..++.|..++.    ++..++++|+||||+|||++++.+++.+...    ..++.++++|+
T Consensus         6 ~~l~~~~~p~---~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~   82 (365)
T TIGR02928         6 DLLEPDYVPD---RIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNC   82 (365)
T ss_pred             hhCCCCCCCC---CCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEEC
Confidence            4567789996   67999999988887775    3444569999999999999999999887431    12257888998


Q ss_pred             CCCcChHHHHH-HHHHHHHhhccCCCCCCC--------------CCCCcEEEEEcCCCCccHHH---HHHHHHH--HHhc
Q psy12150        105 SDDRGIQVIRD-KVKTFAQQTASGFNQDGK--------------PCPPFKIVILDEADSMTHAA---QAALRRT--MEKE  164 (456)
Q Consensus       105 ~~~~~~~~i~~-~l~~~~~~~~~~~~~~~~--------------~~~~~~iviIDE~d~l~~~~---~~~Ll~~--le~~  164 (456)
                      ........+.. ....+...... ....+.              ......+|||||+|.+....   ...|.+.  ..+.
T Consensus        83 ~~~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~  161 (365)
T TIGR02928        83 QILDTLYQVLVELANQLRGSGEE-VPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDL  161 (365)
T ss_pred             CCCCCHHHHHHHHHHHHhhcCCC-CCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCC
Confidence            77555433322 22222110000 000000              01234589999999995332   3334433  1222


Q ss_pred             c-CcceEEEEecCcc---cccccccCCce--EEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHH---HcCCCHH
Q psy12150        165 T-KSTRFCLICNYVS---CIIQPLTSRCS--KFRFKPLAENTMLTRLQYICEQ--ESVMCDFKALETLVE---TSGGDMR  233 (456)
Q Consensus       165 ~-~~~~lIl~~~~~~---kl~~~l~~r~~--~i~f~~~~~~el~~~l~~~~~~--~~~~i~~~~l~~L~~---~s~gdlr  233 (456)
                      + ..+.+|+++|.+.   .+.+.+.+|+.  .+.|+|++.+++.++++.+++.  .+..+++++++.++.   .+.||+|
T Consensus       162 ~~~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R  241 (365)
T TIGR02928       162 DNAKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDAR  241 (365)
T ss_pred             CCCeEEEEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHH
Confidence            2 4567788887653   46667777874  7999999999999999999863  234588888777554   5579999


Q ss_pred             HHHHHHHHHHHhh---CCCCCCHHHHHHHhCCC
Q psy12150        234 RAITCLQSCARLK---GGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       234 ~~~~~L~~~~~~~---~~~~It~~~v~~~~~~~  263 (456)
                      .+++.|+.++..+   +...||.++|..+....
T Consensus       242 ~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~  274 (365)
T TIGR02928       242 KAIDLLRVAGEIAEREGAERVTEDHVEKAQEKI  274 (365)
T ss_pred             HHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            9999999987765   34579999998877654

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=99.81  E-value=1.4e-18  Score=161.76  Aligned_cols=203  Identities=15%  Similarity=0.210  Sum_probs=141.4

Q ss_pred             CCCCcccccccHHH--HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHH
Q psy12150         40 RPKTIDDVIEQQEV--VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV  117 (456)
Q Consensus        40 ~P~~~~~ivg~~~~--~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l  117 (456)
                      .+.+|+++++.+..  ...+.+....+..+.++||||||+|||++++++++++.....+..++..+......    .+.+
T Consensus        11 ~~~~fd~f~~~~~~~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~~~----~~~~   86 (229)
T PRK06893         11 DDETLDNFYADNNLLLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQYFS----PAVL   86 (229)
T ss_pred             CcccccccccCChHHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhhhh----HHHH
Confidence            35689999976543  23344444444344589999999999999999999875443332333332111110    1111


Q ss_pred             HHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--HHHHHHHHHHHhcc--CcceEEEEecCc-c---cccccccCCce
Q psy12150        118 KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKET--KSTRFCLICNYV-S---CIIQPLTSRCS  189 (456)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--~~~~~Ll~~le~~~--~~~~lIl~~~~~-~---kl~~~l~~r~~  189 (456)
                      ..+               ....+|+|||++.+..  ..+..|..+++...  ...+++++++.. .   ...+.+.+|+.
T Consensus        87 ~~~---------------~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~  151 (229)
T PRK06893         87 ENL---------------EQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLT  151 (229)
T ss_pred             hhc---------------ccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHh
Confidence            111               1334999999998853  23445666555432  234456666643 2   23478999986


Q ss_pred             ---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHhC
Q psy12150        190 ---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVTG  261 (456)
Q Consensus       190 ---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~~v~~~~~  261 (456)
                         .+++.+|+.++...++++.+...++.++++++++|++.++||+|.+++.++.+...+  .++.||.+.|++++.
T Consensus       152 ~g~~~~l~~pd~e~~~~iL~~~a~~~~l~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~~it~~~v~~~L~  228 (229)
T PRK06893        152 WGEIYQLNDLTDEQKIIVLQRNAYQRGIELSDEVANFLLKRLDRDMHTLFDALDLLDKASLQAQRKLTIPFVKEILG  228 (229)
T ss_pred             cCCeeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHhc
Confidence               899999999999999999999999999999999999999999999999999875432  467899999998764

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.80  E-value=5.3e-18  Score=158.15  Aligned_cols=200  Identities=17%  Similarity=0.217  Sum_probs=150.7

Q ss_pred             CCCCccccc--ccHHHHHHHHHHHhcC-CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH
Q psy12150         40 RPKTIDDVI--EQQEVVSVLKKCLSGA-DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK  116 (456)
Q Consensus        40 ~P~~~~~iv--g~~~~~~~l~~~l~~~-~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~  116 (456)
                      +|.+|++++  +++..+..+..+.... ...+++|+||+|+|||+++++++++......  .+..+++....      ..
T Consensus        13 ~~~~~d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~--~~~~i~~~~~~------~~   84 (227)
T PRK08903         13 PPPTFDNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGR--NARYLDAASPL------LA   84 (227)
T ss_pred             ChhhhcccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCC--cEEEEehHHhH------HH
Confidence            355788877  3467778888887743 3345999999999999999999998754333  45666654421      11


Q ss_pred             HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc--CcceEEEEecCcc---cccccccCCc---
Q psy12150        117 VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET--KSTRFCLICNYVS---CIIQPLTSRC---  188 (456)
Q Consensus       117 l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~--~~~~lIl~~~~~~---kl~~~l~~r~---  188 (456)
                      +   .   ..         ....+|+|||++.+....+..|..+++...  ...+++++++...   .+.+.+.+|+   
T Consensus        85 ~---~---~~---------~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~  149 (227)
T PRK08903         85 F---D---FD---------PEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWG  149 (227)
T ss_pred             H---h---hc---------ccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcC
Confidence            1   0   00         123499999999999888888888886533  2334555555332   3446677775   


Q ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHhCC
Q psy12150        189 SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       189 ~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~~v~~~~~~  262 (456)
                      ..+++++++.++...++...+.+.++.+++++++.|++.++||+|.+.+.++.+..++  .++.||...+++++..
T Consensus       150 ~~i~l~pl~~~~~~~~l~~~~~~~~v~l~~~al~~L~~~~~gn~~~l~~~l~~l~~~~~~~~~~i~~~~~~~~l~~  225 (227)
T PRK08903        150 LVYELKPLSDADKIAALKAAAAERGLQLADEVPDYLLTHFRRDMPSLMALLDALDRYSLEQKRPVTLPLLREMLAQ  225 (227)
T ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhc
Confidence            6899999999999999999999999999999999999999999999999999987665  5678999999998863

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=99.80  E-value=7.5e-17  Score=152.45  Aligned_cols=157  Identities=17%  Similarity=0.205  Sum_probs=129.5

Q ss_pred             HHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCc-----------cccceEEeeCCC---CcChHHHHHHH
Q psy12150         53 VVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDM-----------YRERILELNASD---DRGIQVIRDKV  117 (456)
Q Consensus        53 ~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~-----------~~~~~~e~n~~~---~~~~~~i~~~l  117 (456)
                      .-+.|.+.+++++.+| |||+||+|+||+++|..+++.+.+..           ...++..+....   ..+++.+++..
T Consensus         5 ~~~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~   84 (290)
T PRK05917          5 AWEALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIK   84 (290)
T ss_pred             HHHHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHH
Confidence            4567899999999999 99999999999999999999998632           112343343322   24677787777


Q ss_pred             HHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEEecCCC
Q psy12150        118 KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA  197 (456)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~  197 (456)
                      ..+...+..+         ++||+|||++|.|+.+++++|++.||+|+++++||++++.+.++.++++|||+.+.|+++ 
T Consensus        85 ~~~~~~p~e~---------~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SRcq~~~~~~~-  154 (290)
T PRK05917         85 KQIWIHPYES---------PYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRSLSIHIPME-  154 (290)
T ss_pred             HHHhhCccCC---------CceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhcceEEEccch-
Confidence            7666555443         788999999999999999999999999999999999999999999999999999999886 


Q ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH
Q psy12150        198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMR  233 (456)
Q Consensus       198 ~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr  233 (456)
                                    +...++++.+..++..++|+++
T Consensus       155 --------------~~~~i~~~~~~~l~~~~~g~~~  176 (290)
T PRK05917        155 --------------EKTLVSKEDIAYLIGYAQGKES  176 (290)
T ss_pred             --------------hccCCCHHHHHHHHHHhCCChh
Confidence                          1224789999999999999986

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.80  E-value=3.8e-17  Score=165.18  Aligned_cols=229  Identities=21%  Similarity=0.256  Sum_probs=156.8

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHH----hcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCL----SGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l----~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      ..|+...|.|.   .++|++..++.|...+    .++.+++++||||||+|||++++.+++.+........++++|+...
T Consensus        20 ~~~l~~~~~P~---~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~   96 (394)
T PRK00411         20 EEVLEPDYVPE---NLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQID   96 (394)
T ss_pred             hhhCCCCCcCC---CCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcC
Confidence            35666777774   5799999988887776    3345566999999999999999999998755433457888888765


Q ss_pred             cChHHHHHHH-HHHHHhhccCCCCC-C----------CCCCCcEEEEEcCCCCcc----HHHHHHHHHHHHhccC-cceE
Q psy12150        108 RGIQVIRDKV-KTFAQQTASGFNQD-G----------KPCPPFKIVILDEADSMT----HAAQAALRRTMEKETK-STRF  170 (456)
Q Consensus       108 ~~~~~i~~~l-~~~~~~~~~~~~~~-~----------~~~~~~~iviIDE~d~l~----~~~~~~Ll~~le~~~~-~~~l  170 (456)
                      .....+...+ ..+........... .          .......+|+|||+|.+.    .+....|.+.++.... .+.+
T Consensus        97 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~v  176 (394)
T PRK00411         97 RTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGV  176 (394)
T ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEE
Confidence            5433322221 21111000000000 0          000133589999999986    2345555555554333 5667


Q ss_pred             EEEecCc---ccccccccCCc--eEEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHc---CCCHHHHHHHHH
Q psy12150        171 CLICNYV---SCIIQPLTSRC--SKFRFKPLAENTMLTRLQYICEQE--SVMCDFKALETLVETS---GGDMRRAITCLQ  240 (456)
Q Consensus       171 Il~~~~~---~kl~~~l~~r~--~~i~f~~~~~~el~~~l~~~~~~~--~~~i~~~~l~~L~~~s---~gdlr~~~~~L~  240 (456)
                      |++++..   ..+.+.+.+++  ..+.|+|++.+++.++++.+++..  ...+++++++.+++.+   .||+|.+++.|.
T Consensus       177 I~i~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~  256 (394)
T PRK00411        177 IGISSDLTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLR  256 (394)
T ss_pred             EEEECCcchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            8887754   23455566665  378999999999999999998753  3468999999999887   899999999998


Q ss_pred             HHHHhh---CCCCCCHHHHHHHhCCC
Q psy12150        241 SCARLK---GGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       241 ~~~~~~---~~~~It~~~v~~~~~~~  263 (456)
                      .++..+   +...|+.++|..+....
T Consensus       257 ~a~~~a~~~~~~~I~~~~v~~a~~~~  282 (394)
T PRK00411        257 RAGLIAEREGSRKVTEEDVRKAYEKS  282 (394)
T ss_pred             HHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence            877665   35679999998877655

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.80  E-value=3.7e-18  Score=162.35  Aligned_cols=190  Identities=18%  Similarity=0.209  Sum_probs=136.2

Q ss_pred             CcccccccHHHHHHHHHHHh----------c-----CCCCeEEEECCCCCcHHHHHHHHHHHhcCCc--cccceEEeeCC
Q psy12150         43 TIDDVIEQQEVVSVLKKCLS----------G-----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDM--YRERILELNAS  105 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~----------~-----~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~--~~~~~~e~n~~  105 (456)
                      .+++++|.+.+++.+++...          .     +...|++|+||||||||++|+.+++.+....  ....+++++++
T Consensus         4 ~l~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~   83 (261)
T TIGR02881         4 ELSRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERA   83 (261)
T ss_pred             HHHHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHH
Confidence            36789999998877764421          1     1234599999999999999999999864311  12356666665


Q ss_pred             CCcCh--HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCcc--------HHHHHHHHHHHHhccCcceEEEEec
Q psy12150        106 DDRGI--QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT--------HAAQAALRRTMEKETKSTRFCLICN  175 (456)
Q Consensus       106 ~~~~~--~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~--------~~~~~~Ll~~le~~~~~~~lIl~~~  175 (456)
                      +..+.  ......+........            ..||||||+|.|.        .+.++.|++.+++....+++|+++.
T Consensus        84 ~l~~~~~g~~~~~~~~~~~~a~------------~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~  151 (261)
T TIGR02881        84 DLVGEYIGHTAQKTREVIKKAL------------GGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGY  151 (261)
T ss_pred             HhhhhhccchHHHHHHHHHhcc------------CCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCC
Confidence            42211  111122222222221            1299999999875        3467889999998877777777654


Q ss_pred             Cc-----ccccccccCCc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH----------cCCCHHHHHHHH
Q psy12150        176 YV-----SCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET----------SGGDMRRAITCL  239 (456)
Q Consensus       176 ~~-----~kl~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~----------s~gdlr~~~~~L  239 (456)
                      ..     ..+.+++.+|+ ..++|++++.+++.++++..+...+..++++++..|++.          +.||.|.+.|.+
T Consensus       152 ~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~~~~gn~R~~~n~~  231 (261)
T TIGR02881       152 SDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVKEREYKLTEEAKWKLREHLYKVDQLSSREFSNARYVRNII  231 (261)
T ss_pred             cchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHhccCCCCchHHHHHHHH
Confidence            32     23568899998 479999999999999999999999999999999988643          369999999999


Q ss_pred             HHHHH
Q psy12150        240 QSCAR  244 (456)
Q Consensus       240 ~~~~~  244 (456)
                      +.+..
T Consensus       232 e~a~~  236 (261)
T TIGR02881       232 EKAIR  236 (261)
T ss_pred             HHHHH
Confidence            88654

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.

>PRK08727 hypothetical protein; Validated

Probab=99.79  E-value=6.6e-18  Score=157.62  Aligned_cols=211  Identities=17%  Similarity=0.235  Sum_probs=147.7

Q ss_pred             CcchhccCC-CCcccccccH-HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh
Q psy12150         33 VPWVEKYRP-KTIDDVIEQQ-EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (456)
Q Consensus        33 ~~w~eky~P-~~~~~ivg~~-~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~  110 (456)
                      .|+--.++| .+|+++++.+ ..+..+.....+.....++|+||+|+|||+++++++.++.....  .+.+++..+..  
T Consensus         6 l~l~~~~~~~~~f~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~--~~~y~~~~~~~--   81 (233)
T PRK08727          6 LPLALRYPSDQRFDSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQAGR--SSAYLPLQAAA--   81 (233)
T ss_pred             ccccCCCCCcCChhhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCC--cEEEEeHHHhh--
Confidence            444444444 3788888654 44454554444433344999999999999999999988755433  44555433211  


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCcc--HHHHHHHHHHHHhcc-CcceEEEEecCc-c---ccccc
Q psy12150        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT--HAAQAALRRTMEKET-KSTRFCLICNYV-S---CIIQP  183 (456)
Q Consensus       111 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~--~~~~~~Ll~~le~~~-~~~~lIl~~~~~-~---kl~~~  183 (456)
                      ..+.+.+..+.               ...+|+|||++.+.  ...+..+.++++... ....+|++++.. .   .+.+.
T Consensus        82 ~~~~~~~~~l~---------------~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~d  146 (233)
T PRK08727         82 GRLRDALEALE---------------GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPD  146 (233)
T ss_pred             hhHHHHHHHHh---------------cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHH
Confidence            11112222111               22399999999886  334556666665422 234466777643 2   34688


Q ss_pred             ccCC---ceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHH
Q psy12150        184 LTSR---CSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLE  258 (456)
Q Consensus       184 l~~r---~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~~v~~  258 (456)
                      +.+|   +..++|++|+.+++..+++.++..+++.+++++++.|++.++||+|.+++.|+.+..++  .++.||.+.+++
T Consensus       147 L~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~l~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~~it~~~~~~  226 (233)
T PRK08727        147 LRSRLAQCIRIGLPVLDDVARAAVLRERAQRRGLALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKRRVTVPFLRR  226 (233)
T ss_pred             HHHHHhcCceEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            9999   77999999999999999999999999999999999999999999999999999876432  467899999988


Q ss_pred             HhCC
Q psy12150        259 VTGV  262 (456)
Q Consensus       259 ~~~~  262 (456)
                      ++..
T Consensus       227 ~l~~  230 (233)
T PRK08727        227 VLEE  230 (233)
T ss_pred             HHhh
Confidence            8753

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.77  E-value=9.2e-18  Score=156.39  Aligned_cols=201  Identities=18%  Similarity=0.230  Sum_probs=146.8

Q ss_pred             CCCccccc--ccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHH
Q psy12150         41 PKTIDDVI--EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVK  118 (456)
Q Consensus        41 P~~~~~iv--g~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~  118 (456)
                      +.+|++++  +++..++.+++++......+++|+||+|||||++++++++.......  .++++++.....      ...
T Consensus        11 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~--~~~~i~~~~~~~------~~~   82 (226)
T TIGR03420        11 DPTFDNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGK--SAIYLPLAELAQ------ADP   82 (226)
T ss_pred             chhhcCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCC--cEEEEeHHHHHH------hHH
Confidence            34677776  36778899999987666667999999999999999999998754322  466666654221      111


Q ss_pred             HHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH--HHHHHHHHHhcc-CcceEEEEecCc-cc--cc-ccccCCc---
Q psy12150        119 TFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA--QAALRRTMEKET-KSTRFCLICNYV-SC--II-QPLTSRC---  188 (456)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~--~~~Ll~~le~~~-~~~~lIl~~~~~-~k--l~-~~l~~r~---  188 (456)
                      .+....           ...++|+|||++.+....  ++.|...++... ....+|++++.. ..  .. +.+.+|+   
T Consensus        83 ~~~~~~-----------~~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~  151 (226)
T TIGR03420        83 EVLEGL-----------EQADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWG  151 (226)
T ss_pred             HHHhhc-----------ccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcC
Confidence            111110           022499999999997633  677777665421 223566666643 22  22 5667775   


Q ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHh
Q psy12150        189 SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVT  260 (456)
Q Consensus       189 ~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~~v~~~~  260 (456)
                      ..+.+++++.++...+++..+.+.++.+++++++.|++.++||+|.+.+.++.+..++  .++.||.+.+++++
T Consensus       152 ~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~l~~L~~~~~gn~r~L~~~l~~~~~~~~~~~~~i~~~~~~~~~  225 (226)
T TIGR03420       152 LVFQLPPLSDEEKIAALQSRAARRGLQLPDEVADYLLRHGSRDMGSLMALLDALDRASLAAKRKITIPFVKEVL  225 (226)
T ss_pred             eeEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHh
Confidence            4899999999999999999998889999999999999999999999999998876533  56789999998875

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.

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

Probab=99.77  E-value=1.1e-17  Score=150.74  Aligned_cols=212  Identities=24%  Similarity=0.296  Sum_probs=149.4

Q ss_pred             chhccCCCCcccccccHHHHHH---HHHHHh------cCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         35 WVEKYRPKTIDDVIEQQEVVSV---LKKCLS------GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        35 w~eky~P~~~~~ivg~~~~~~~---l~~~l~------~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      ..+...-.+|+|++||++.++.   +.++++      .+.+.++|||||||||||.+|++++++..     .+++.+++.
T Consensus       111 ~~e~~~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~k-----vp~l~vkat  185 (368)
T COG1223         111 DREIISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAK-----VPLLLVKAT  185 (368)
T ss_pred             hhhhhccccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccC-----CceEEechH
Confidence            3455666799999999998865   445554      35566799999999999999999999863     356666665


Q ss_pred             CCcCh--HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH------------HHHHHHHHHHHh--ccCcce
Q psy12150        106 DDRGI--QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH------------AAQAALRRTMEK--ETKSTR  169 (456)
Q Consensus       106 ~~~~~--~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~------------~~~~~Ll~~le~--~~~~~~  169 (456)
                      ...+.  ++-...+.++...+..     ..||    |+||||+|.+.-            +..++|+.-|+.  ....++
T Consensus       186 ~liGehVGdgar~Ihely~rA~~-----~aPc----ivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVv  256 (368)
T COG1223         186 ELIGEHVGDGARRIHELYERARK-----AAPC----IVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVV  256 (368)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHh-----cCCe----EEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceE
Confidence            43221  2222333333333222     2455    999999998743            234556555543  335688


Q ss_pred             EEEEecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHH-----HHHH
Q psy12150        170 FCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITC-----LQSC  242 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~-----L~~~  242 (456)
                      .|.++|.+.-+.+++++|+. .++|.-|+.++...+++..+++-.++++.. ++.++..+.| +-|.+..-     |.++
T Consensus       257 tIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~-~~~~~~~t~g~SgRdikekvlK~aLh~A  335 (368)
T COG1223         257 TIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDAD-LRYLAAKTKGMSGRDIKEKVLKTALHRA  335 (368)
T ss_pred             EEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccccC-HHHHHHHhCCCCchhHHHHHHHHHHHHH
Confidence            88899999999999999998 899999999999999999999888777766 7888888766 33433333     3332


Q ss_pred             HHhhCCCCCCHHHHHHHhCC
Q psy12150        243 ARLKGGEGIVNEDVLEVTGV  262 (456)
Q Consensus       243 ~~~~~~~~It~~~v~~~~~~  262 (456)
                      .. .+...|+.+|+..++..
T Consensus       336 i~-ed~e~v~~edie~al~k  354 (368)
T COG1223         336 IA-EDREKVEREDIEKALKK  354 (368)
T ss_pred             HH-hchhhhhHHHHHHHHHh
Confidence            22 15678999998877653

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=99.77  E-value=1.4e-17  Score=170.38  Aligned_cols=211  Identities=22%  Similarity=0.340  Sum_probs=137.9

Q ss_pred             CCCCCcchhccCCCCcccccccHHHHHHHHHHHhcCC---C-C-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEee
Q psy12150         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGAD---L-P-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (456)
Q Consensus        29 ~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~---~-~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n  103 (456)
                      .+...||+++|+|++.+|++.++..+++++.|++...   . . .++|+||+|||||++++.++++++.+     +.|..
T Consensus         3 ~~~~~~W~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg~~-----v~Ew~   77 (519)
T PF03215_consen    3 DDESEPWVEKYAPKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELGFE-----VQEWI   77 (519)
T ss_pred             CcccCccchhcCCCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhCCe-----eEEec
Confidence            4667999999999999999999999999999997532   2 1 28999999999999999999998652     22211


Q ss_pred             -CCC----------C----cChHHHHHHHHHHHHhhccCCC------CCCCCCCCcEEEEEcCCCCccHHH----HHHHH
Q psy12150        104 -ASD----------D----RGIQVIRDKVKTFAQQTASGFN------QDGKPCPPFKIVILDEADSMTHAA----QAALR  158 (456)
Q Consensus       104 -~~~----------~----~~~~~i~~~l~~~~~~~~~~~~------~~~~~~~~~~iviIDE~d~l~~~~----~~~Ll  158 (456)
                       ...          .    ...+.....+..|.........      ........++||+|||+..+....    .+.|.
T Consensus        78 np~~~~~~~~~~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~~~~~~f~~~L~  157 (519)
T PF03215_consen   78 NPVSFRESDNQEDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFHRDTSRFREALR  157 (519)
T ss_pred             CCCCccccccccccccccccccccccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccchhHHHHHHHHH
Confidence             110          0    0001111222222221110000      011112468899999998875443    34455


Q ss_pred             HHHHhccC-cceEEEEe-cC------cc-------cc-cccccC--CceEEEecCCCHHHHHHHHHHHHHHc-----CC-
Q psy12150        159 RTMEKETK-STRFCLIC-NY------VS-------CI-IQPLTS--RCSKFRFKPLAENTMLTRLQYICEQE-----SV-  214 (456)
Q Consensus       159 ~~le~~~~-~~~lIl~~-~~------~~-------kl-~~~l~~--r~~~i~f~~~~~~el~~~l~~~~~~~-----~~-  214 (456)
                      +++..... .++||++- +.      ..       .+ .+.+..  ++..|.|.|....-+.+.|.+++..+     +. 
T Consensus       158 ~~l~~~~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i~~I~FNpIa~T~mkKaL~rI~~~E~~~~~~~~  237 (519)
T PF03215_consen  158 QYLRSSRCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGITRIKFNPIAPTFMKKALKRILKKEARSSSGKN  237 (519)
T ss_pred             HHHHcCCCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCceEEEecCCCHHHHHHHHHHHHHHHhhhhcCCc
Confidence            55554333 34444441 11      11       12 233443  35589999999999999999999987     32 


Q ss_pred             CCC--HHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy12150        215 MCD--FKALETLVETSGGDMRRAITCLQSCAR  244 (456)
Q Consensus       215 ~i~--~~~l~~L~~~s~gdlr~~~~~L~~~~~  244 (456)
                      ..+  .+.++.|++.++||+|.|++.||.++.
T Consensus       238 ~~p~~~~~l~~I~~~s~GDIRsAIn~LQf~~~  269 (519)
T PF03215_consen  238 KVPDKQSVLDSIAESSNGDIRSAINNLQFWCL  269 (519)
T ss_pred             cCCChHHHHHHHHHhcCchHHHHHHHHHHHhc
Confidence            233  446999999999999999999999987

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

Probab=99.77  E-value=2.3e-17  Score=155.54  Aligned_cols=202  Identities=20%  Similarity=0.285  Sum_probs=145.7

Q ss_pred             CCcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC-
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD-  107 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~-  107 (456)
                      -+++++-|.+..++++++.++            +-.+|. +|||||||||||.+|+++|++...     .|+.+.++.. 
T Consensus       148 vtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~A-----tFIrvvgSElV  222 (406)
T COG1222         148 VTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDA-----TFIRVVGSELV  222 (406)
T ss_pred             CChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCc-----eEEEeccHHHH
Confidence            489999999999999999974            223444 999999999999999999998654     5666655541 


Q ss_pred             -----cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHh-----ccC
Q psy12150        108 -----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK-----ETK  166 (456)
Q Consensus       108 -----~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~-----~~~  166 (456)
                           .+..-++    +.+..+.     ...||    ||||||+|.+..           +.|..++++|.+     +..
T Consensus       223 qKYiGEGaRlVR----elF~lAr-----ekaPs----IIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~  289 (406)
T COG1222         223 QKYIGEGARLVR----ELFELAR-----EKAPS----IIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRG  289 (406)
T ss_pred             HHHhccchHHHH----HHHHHHh-----hcCCe----EEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCC
Confidence                 1222222    2222221     22344    999999999843           357777777763     456


Q ss_pred             cceEEEEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHH
Q psy12150        167 STRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGD-MRRAITCLQSC  242 (456)
Q Consensus       167 ~~~lIl~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gd-lr~~~~~L~~~  242 (456)
                      ++.+|++||.+.-+.|+|.+.+.   .|+|+.|+.+....+++-+.++-+.. ++-.++.|++.++|- --.+.+.+..+
T Consensus       290 nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~-~dvd~e~la~~~~g~sGAdlkaictEA  368 (406)
T COG1222         290 NVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLA-DDVDLELLARLTEGFSGADLKAICTEA  368 (406)
T ss_pred             CeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCc-cCcCHHHHHHhcCCCchHHHHHHHHHH
Confidence            78999999999999999987765   89999999999999999888765432 334577788877653 23344444445


Q ss_pred             HHhh---CCCCCCHHHHHHHhCC
Q psy12150        243 ARLK---GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       243 ~~~~---~~~~It~~~v~~~~~~  262 (456)
                      ..++   .+..||.+|+.+++..
T Consensus       369 Gm~AiR~~R~~Vt~~DF~~Av~K  391 (406)
T COG1222         369 GMFAIRERRDEVTMEDFLKAVEK  391 (406)
T ss_pred             hHHHHHhccCeecHHHHHHHHHH
Confidence            4444   6788999998877653

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.76  E-value=6e-17  Score=170.49  Aligned_cols=232  Identities=18%  Similarity=0.221  Sum_probs=166.2

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCC---c--cccceEEeeCC
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD---M--YRERILELNAS  105 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~---~--~~~~~~e~n~~  105 (456)
                      -+.|..+.+||.+|++++|++..+..+...+......+++|+||+|||||++++.+++.....   .  ....++.+++.
T Consensus       140 ~~~~~~~~~rp~~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~  219 (615)
T TIGR02903       140 LHKSAQSLLRPRAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGT  219 (615)
T ss_pred             hhhHHhhhcCcCcHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEech
Confidence            456788899999999999999999988888877777779999999999999999998765321   0  13467888876


Q ss_pred             CCcC-hHHHHHHH------------H-HHHHhhccCCCCCCCC-CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----
Q psy12150        106 DDRG-IQVIRDKV------------K-TFAQQTASGFNQDGKP-CPPFKIVILDEADSMTHAAQAALRRTMEKET-----  165 (456)
Q Consensus       106 ~~~~-~~~i~~~l------------~-~~~~~~~~~~~~~~~~-~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----  165 (456)
                      .... ...+...+            . .+........ ..+.. .....++|+||++.|....+..|++++++..     
T Consensus       220 ~l~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~-~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~  298 (615)
T TIGR02903       220 TLRWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEP-KTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSS  298 (615)
T ss_pred             hccCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCch-hcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeec
Confidence            5321 11111100            0 0000000000 00000 0233499999999999999999999997632     


Q ss_pred             -----------------------CcceEEEEe-cCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHH
Q psy12150        166 -----------------------KSTRFCLIC-NYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKAL  221 (456)
Q Consensus       166 -----------------------~~~~lIl~~-~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l  221 (456)
                                             ..++++.++ +++..+.+++++||..+.|.+++.+++..+++..+.+.+..++++++
T Consensus       299 ~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~ls~eal  378 (615)
T TIGR02903       299 SYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHLAAGVE  378 (615)
T ss_pred             ceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHH
Confidence                                   112333333 34567888999999999999999999999999999988888999999


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHhh---------C--CCCCCHHHHHHHhCCCC
Q psy12150        222 ETLVETSGGDMRRAITCLQSCARLK---------G--GEGIVNEDVLEVTGVIP  264 (456)
Q Consensus       222 ~~L~~~s~gdlr~~~~~L~~~~~~~---------~--~~~It~~~v~~~~~~~~  264 (456)
                      +.|.+++. +.|++++.|+.+..++         .  ...|+.++|.++++...
T Consensus       379 ~~L~~ys~-~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~~r  431 (615)
T TIGR02903       379 ELIARYTI-EGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQISR  431 (615)
T ss_pred             HHHHHCCC-cHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCCCc
Confidence            99998765 6799999998775542         1  12688999999988664

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.

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=99.75  E-value=8.6e-16  Score=151.41  Aligned_cols=238  Identities=21%  Similarity=0.304  Sum_probs=167.6

Q ss_pred             cchhccCCCCcccccccHHHHHHHH----HHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC
Q psy12150         34 PWVEKYRPKTIDDVIEQQEVVSVLK----KCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (456)
Q Consensus        34 ~w~eky~P~~~~~ivg~~~~~~~l~----~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~  109 (456)
                      -+.+-|.|..   +.+++..++++.    .++.++.+.++++||+||||||.+++.+.+++........++++||.....
T Consensus         9 vl~~~~iP~~---l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t   85 (366)
T COG1474           9 VLLEDYIPEE---LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRT   85 (366)
T ss_pred             ccCCCCCccc---ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCC
Confidence            3455677755   788888876665    455677777799999999999999999999997755544589999998766


Q ss_pred             hHHHHHHHHH-HHHhhccCCCCCC---------CCCCCcEEEEEcCCCCccHHHHHHHHHHHH---hccCcceEEEEecC
Q psy12150        110 IQVIRDKVKT-FAQQTASGFNQDG---------KPCPPFKIVILDEADSMTHAAQAALRRTME---KETKSTRFCLICNY  176 (456)
Q Consensus       110 ~~~i~~~l~~-~~~~~~~~~~~~~---------~~~~~~~iviIDE~d~l~~~~~~~Ll~~le---~~~~~~~lIl~~~~  176 (456)
                      ...+...+-. +...+..+.....         ......-||++||+|.|.....+.|..++.   .....+.+|+++|+
T Consensus        86 ~~~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~  165 (366)
T COG1474          86 PYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSND  165 (366)
T ss_pred             HHHHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEecc
Confidence            6554443332 2111111100000         000244599999999998765455544443   33334567777776


Q ss_pred             c---ccccccccCCce--EEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHH---HcCCCHHHHHHHHHHHHHhh
Q psy12150        177 V---SCIIQPLTSRCS--KFRFKPLAENTMLTRLQYICEQ--ESVMCDFKALETLVE---TSGGDMRRAITCLQSCARLK  246 (456)
Q Consensus       177 ~---~kl~~~l~~r~~--~i~f~~~~~~el~~~l~~~~~~--~~~~i~~~~l~~L~~---~s~gdlr~~~~~L~~~~~~~  246 (456)
                      .   ..+.+.+.++..  .+.|+|++.+|+..+|..+++.  ....+++++++.++.   ..+||.|.++..|..++..+
T Consensus       166 ~~~~~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiA  245 (366)
T COG1474         166 DKFLDYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIA  245 (366)
T ss_pred             HHHHHHhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHH
Confidence            4   345677777765  6889999999999999999885  344688998888774   45789999999999998887


Q ss_pred             ---CCCCCCHHHHHHHhCCCCHHHHHHHHcc
Q psy12150        247 ---GGEGIVNEDVLEVTGVIPKPWIEKLLKV  274 (456)
Q Consensus       247 ---~~~~It~~~v~~~~~~~~~~~i~~l~~~  274 (456)
                         +.+.++.++|..+......+...+.++.
T Consensus       246 e~~~~~~v~~~~v~~a~~~~~~~~~~~~~~~  276 (366)
T COG1474         246 EREGSRKVSEDHVREAQEEIERDVLEEVLKT  276 (366)
T ss_pred             HhhCCCCcCHHHHHHHHHHhhHHHHHHHHHc
Confidence               5789999999999666655555555554

>PRK06620 hypothetical protein; Validated

Probab=99.74  E-value=6.5e-17  Score=148.51  Aligned_cols=192  Identities=15%  Similarity=0.144  Sum_probs=134.5

Q ss_pred             CcchhccCCCCcccccc---cHHHHHHHHHHHhcCC--C--CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         33 VPWVEKYRPKTIDDVIE---QQEVVSVLKKCLSGAD--L--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg---~~~~~~~l~~~l~~~~--~--~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      .+|..+|+   |++++.   +..+...++.+.+.+.  +  ++++||||+|+|||++++++++....     .++  ...
T Consensus         7 ~~~~~~~t---fd~Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~-----~~~--~~~   76 (214)
T PRK06620          7 FTTSSKYH---PDEFIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNA-----YII--KDI   76 (214)
T ss_pred             CCCCCCCC---chhhEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHHhccCC-----EEc--chh
Confidence            45555664   555553   4556777888776432  2  34999999999999999998886421     111  110


Q ss_pred             CCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC-cc--cccc
Q psy12150        106 DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY-VS--CIIQ  182 (456)
Q Consensus       106 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~-~~--kl~~  182 (456)
                      ..     .    ..+..              ...+++|||+|.+.....-.+.+.+.+..  ..++++++. +.  .+ +
T Consensus        77 ~~-----~----~~~~~--------------~~d~lliDdi~~~~~~~lf~l~N~~~e~g--~~ilits~~~p~~l~l-~  130 (214)
T PRK06620         77 FF-----N----EEILE--------------KYNAFIIEDIENWQEPALLHIFNIINEKQ--KYLLLTSSDKSRNFTL-P  130 (214)
T ss_pred             hh-----c----hhHHh--------------cCCEEEEeccccchHHHHHHHHHHHHhcC--CEEEEEcCCCccccch-H
Confidence            00     0    01110              22399999999875443334444443332  244555543 22  24 8


Q ss_pred             cccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHH
Q psy12150        183 PLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVL  257 (456)
Q Consensus       183 ~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~~v~  257 (456)
                      .|++|+.   .+++.+|+.+++..++++.++..|+.++++++++|++.++||+|.+++.|+.+..++  .++.||.+.++
T Consensus       131 ~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~l~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~~it~~~~~  210 (214)
T PRK06620        131 DLSSRIKSVLSILLNSPDDELIKILIFKHFSISSVTISRQIIDFLLVNLPREYSKIIEILENINYFALISKRKITISLVK  210 (214)
T ss_pred             HHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            8999987   999999999999999999999899999999999999999999999999999976543  45679999988


Q ss_pred             HHh
Q psy12150        258 EVT  260 (456)
Q Consensus       258 ~~~  260 (456)
                      +++
T Consensus       211 ~~l  213 (214)
T PRK06620        211 EVL  213 (214)
T ss_pred             HHh
Confidence            875

>KOG1970|consensus

Probab=99.74  E-value=5.8e-17  Score=160.02  Aligned_cols=211  Identities=22%  Similarity=0.361  Sum_probs=141.6

Q ss_pred             CCCCCcchhccCCCCcccccccHHHHHHHHHHHh-----cCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEE
Q psy12150         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLS-----GADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (456)
Q Consensus        29 ~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~-----~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e  101 (456)
                      .....+|.++|+|.+.+++..++..+.+++.|++     ....++  +||+||+||||||+++.++++++..     +.|
T Consensus        66 ~d~~elW~eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskelg~~-----~~E  140 (634)
T KOG1970|consen   66 EDEFELWVEKYKPRTLEELAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELGYQ-----LIE  140 (634)
T ss_pred             ccccchhHHhcCcccHHHHhhhHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhhCce-----eee
Confidence            4567899999999999999999999999999998     555555  9999999999999999999998652     222


Q ss_pred             eeC-----------CCCcC-hHHHHHHH---HHHHHhhc--cCCCCCC-CCCCCcEEEEEcCCCCccHH-H----HHHHH
Q psy12150        102 LNA-----------SDDRG-IQVIRDKV---KTFAQQTA--SGFNQDG-KPCPPFKIVILDEADSMTHA-A----QAALR  158 (456)
Q Consensus       102 ~n~-----------~~~~~-~~~i~~~l---~~~~~~~~--~~~~~~~-~~~~~~~iviIDE~d~l~~~-~----~~~Ll  158 (456)
                      .+.           ....+ ...+...+   +.|.....  ......+ ....++++|+|||+...... .    ++.|.
T Consensus       141 w~Npi~~~~~~~~h~~t~~~~~~~~s~L~~fesFler~~kyg~l~~~g~~~~~~~~liLveDLPn~~~~d~~~~f~evL~  220 (634)
T KOG1970|consen  141 WSNPINLKEPENLHNETSFLMFPYQSQLAVFESFLLRATKYGSLQMSGDDLRTDKKLILVEDLPNQFYRDDSETFREVLR  220 (634)
T ss_pred             ecCCccccccccccccchhcccchhhHHHHHHHHHHHHHhhchhhhcccccccCceEEEeeccchhhhhhhHHHHHHHHH
Confidence            110           00000 01122222   22332221  1111111 11135679999999876543 2    33344


Q ss_pred             HHHHhccCcceEEEEec-------Ccccccccc--cCCceEEEecCCCHHHHHHHHHHHHHHcCCCCC------HHHHHH
Q psy12150        159 RTMEKETKSTRFCLICN-------YVSCIIQPL--TSRCSKFRFKPLAENTMLTRLQYICEQESVMCD------FKALET  223 (456)
Q Consensus       159 ~~le~~~~~~~lIl~~~-------~~~kl~~~l--~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~------~~~l~~  223 (456)
                      .|...+.-.++||++-.       ......+.+  .-|...|.|.|+...-+.+.|+.+|..++...+      ...++.
T Consensus       221 ~y~s~g~~PlIf~iTd~~~~g~nnq~rlf~~d~q~~~ri~~IsFNPIa~T~MKK~L~ric~~e~~~~s~~k~~~~~~v~~  300 (634)
T KOG1970|consen  221 LYVSIGRCPLIFIITDSLSNGNNNQDRLFPKDIQEEPRISNISFNPIAPTIMKKFLKRICRIEANKKSGIKVPDTAEVEL  300 (634)
T ss_pred             HHHhcCCCcEEEEEeccccCCCcchhhhchhhhhhccCcceEeecCCcHHHHHHHHHHHHHHhcccccCCcCchhHHHHH
Confidence            44444333344444321       112233333  344559999999999999999999999887776      677899


Q ss_pred             HHHHcCCCHHHHHHHHHHHHH
Q psy12150        224 LVETSGGDMRRAITCLQSCAR  244 (456)
Q Consensus       224 L~~~s~gdlr~~~~~L~~~~~  244 (456)
                      ++..++||+|.|++.||..+.
T Consensus       301 i~~~s~GDIRsAInsLQlsss  321 (634)
T KOG1970|consen  301 ICQGSGGDIRSAINSLQLSSS  321 (634)
T ss_pred             HHHhcCccHHHHHhHhhhhcc
Confidence            999999999999999998853

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=99.74  E-value=4.1e-15  Score=144.73  Aligned_cols=136  Identities=20%  Similarity=0.342  Sum_probs=111.5

Q ss_pred             cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc--------------------ccceEEeeCCC----------CcChH
Q psy12150         63 GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY--------------------RERILELNASD----------DRGIQ  111 (456)
Q Consensus        63 ~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~--------------------~~~~~e~n~~~----------~~~~~  111 (456)
                      .++.+| |||+||+|+|||++++.+++.+.+...                    ..++++++...          ..+++
T Consensus        17 ~~r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id   96 (325)
T PRK08699         17 WERRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKID   96 (325)
T ss_pred             cCCcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHH
Confidence            457888 999999999999999999999875211                    12466665531          13577


Q ss_pred             HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEE
Q psy12150        112 VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKF  191 (456)
Q Consensus       112 ~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i  191 (456)
                      .+++........+..         +++||+++|+++.|+...++.|++.|++++..+.||+++++...+.+.+.+||+.+
T Consensus        97 ~iR~l~~~~~~~p~~---------~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~  167 (325)
T PRK08699         97 AVREIIDNVYLTSVR---------GGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKM  167 (325)
T ss_pred             HHHHHHHHHhhCccc---------CCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhh
Confidence            788766555444333         27889999999999999999999999999888889999999999999999999999


Q ss_pred             EecCCCHHHHHHHHHH
Q psy12150        192 RFKPLAENTMLTRLQY  207 (456)
Q Consensus       192 ~f~~~~~~el~~~l~~  207 (456)
                      .|.+++.+++..||..
T Consensus       168 ~~~~~~~~~~~~~L~~  183 (325)
T PRK08699        168 VLPAPSHEEALAYLRE  183 (325)
T ss_pred             cCCCCCHHHHHHHHHh
Confidence            9999999999999974

>PRK05642 DNA replication initiation factor; Validated

Probab=99.73  E-value=4.1e-16  Score=145.58  Aligned_cols=210  Identities=15%  Similarity=0.189  Sum_probs=145.5

Q ss_pred             CcchhccCC-CCccccc-cc-HHHHHHHHHHHhc---CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         33 VPWVEKYRP-KTIDDVI-EQ-QEVVSVLKKCLSG---ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        33 ~~w~eky~P-~~~~~iv-g~-~~~~~~l~~~l~~---~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      .|+--...| .+|++++ |. ...+..+.++..+   +..++++|+||+|+|||++++++++++....  ..+++++..+
T Consensus         6 l~l~~~~~~~~tfdnF~~~~~~~a~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~--~~v~y~~~~~   83 (234)
T PRK05642          6 LPLGVRLRDDATFANYYPGANAAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQRG--EPAVYLPLAE   83 (234)
T ss_pred             cccCCCCCCcccccccCcCChHHHHHHHHHHhhccccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEeeHHH
Confidence            444444444 3788887 32 3334445555442   2234599999999999999999998775432  2456665543


Q ss_pred             CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--HHHHHHHHHHHhcc-CcceEEEEecC-c---cc
Q psy12150        107 DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKET-KSTRFCLICNY-V---SC  179 (456)
Q Consensus       107 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--~~~~~Ll~~le~~~-~~~~lIl~~~~-~---~k  179 (456)
                      ...      ....+.....           +..+++|||++.+..  ..++.|..+++... ....++++++. +   ..
T Consensus        84 ~~~------~~~~~~~~~~-----------~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~  146 (234)
T PRK05642         84 LLD------RGPELLDNLE-----------QYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPI  146 (234)
T ss_pred             HHh------hhHHHHHhhh-----------hCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCc
Confidence            211      1111111110           223899999998853  34566777665432 23456666653 2   22


Q ss_pred             ccccccCCc---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHH
Q psy12150        180 IIQPLTSRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNE  254 (456)
Q Consensus       180 l~~~l~~r~---~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~  254 (456)
                      ..+.+.+|+   ..+.+.+++.++...+++..+...++.+++++++.|++.++||+|.+.+.++.+..++  .++.||..
T Consensus       147 ~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~~~~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it~~  226 (234)
T PRK05642        147 KLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRGLHLTDEVGHFILTRGTRSMSALFDLLERLDQASLQAQRKLTIP  226 (234)
T ss_pred             cCccHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHcCCcCCHH
Confidence            368899998   6899999999999999998888889999999999999999999999999999886544  46789999


Q ss_pred             HHHHHhC
Q psy12150        255 DVLEVTG  261 (456)
Q Consensus       255 ~v~~~~~  261 (456)
                      .+++++.
T Consensus       227 ~~~~~L~  233 (234)
T PRK05642        227 FLKETLG  233 (234)
T ss_pred             HHHHHhc
Confidence            9988764

>CHL00181 cbbX CbbX; Provisional

Probab=99.73  E-value=1.8e-16  Score=151.94  Aligned_cols=188  Identities=18%  Similarity=0.190  Sum_probs=132.6

Q ss_pred             cccccHHHHHHHHHHHh----------cC-----CCCeEEEECCCCCcHHHHHHHHHHHhcCCcc--ccceEEeeCCCCc
Q psy12150         46 DVIEQQEVVSVLKKCLS----------GA-----DLPHFLFYGPPGTGKTSTMIAACHQLFGDMY--RERILELNASDDR  108 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~----------~~-----~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~--~~~~~e~n~~~~~  108 (456)
                      +++|.+.+++++.+.+.          .|     ...|++|+||||||||++|+++++.+.....  ...+++++..+..
T Consensus        24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l~  103 (287)
T CHL00181         24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDLV  103 (287)
T ss_pred             hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHHH
Confidence            68999988887765531          11     1234999999999999999999997643111  2246666644311


Q ss_pred             Ch--HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCc---------cHHHHHHHHHHHHhccCcceEEEEecCc
Q psy12150        109 GI--QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM---------THAAQAALRRTMEKETKSTRFCLICNYV  177 (456)
Q Consensus       109 ~~--~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l---------~~~~~~~Ll~~le~~~~~~~lIl~~~~~  177 (456)
                      +.  +.............            ...||||||++.+         ..+.++.|+..|++....+++|++++..
T Consensus       104 ~~~~g~~~~~~~~~l~~a------------~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~  171 (287)
T CHL00181        104 GQYIGHTAPKTKEVLKKA------------MGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKD  171 (287)
T ss_pred             HHHhccchHHHHHHHHHc------------cCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcH
Confidence            10  00001111222221            1239999999987         3456788999999887778887776531


Q ss_pred             -----ccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--------cCCCHHHHHHHHHHHH
Q psy12150        178 -----SCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET--------SGGDMRRAITCLQSCA  243 (456)
Q Consensus       178 -----~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~--------s~gdlr~~~~~L~~~~  243 (456)
                           ....+++.+|+. .++|++++.+++..++...+++.+..+++++...+...        ..||.|.+.+.++++.
T Consensus       172 ~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~~GNaR~vrn~ve~~~  251 (287)
T CHL00181        172 RMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANARSVRNALDRAR  251 (287)
T ss_pred             HHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence                 133588999987 89999999999999999999999999999988777664        2489999999998875


Q ss_pred             Hh
Q psy12150        244 RL  245 (456)
Q Consensus       244 ~~  245 (456)
                      ..
T Consensus       252 ~~  253 (287)
T CHL00181        252 MR  253 (287)
T ss_pred             HH
Confidence            53

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=99.73  E-value=3.6e-15  Score=141.58  Aligned_cols=172  Identities=21%  Similarity=0.278  Sum_probs=135.4

Q ss_pred             ccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc-------------------ccceEEeeCCC-C
Q psy12150         49 EQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILELNASD-D  107 (456)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~-------------------~~~~~e~n~~~-~  107 (456)
                      .++.+++.+++.+.+++.+| |||+||  +||+++|..+++.+.+...                   ..++..+.... .
T Consensus         6 ~q~~~~~~L~~~~~~~rl~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~~~i~p~~~~   83 (290)
T PRK07276          6 KQPKVFQRFQTILEQDRLNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDVTVIEPQGQV   83 (290)
T ss_pred             HHHHHHHHHHHHHHcCCcceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCeeeecCCCCc
Confidence            46788899999999999999 999996  6899999999998875321                   01333443321 2


Q ss_pred             cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCC
Q psy12150        108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSR  187 (456)
Q Consensus       108 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r  187 (456)
                      ..++.+++.+..+...+..+         ++||+|||++|.|+.++.++|++.||+|+++++||++++.+.++.++++||
T Consensus        84 I~idqIR~l~~~~~~~p~~~---------~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SR  154 (290)
T PRK07276         84 IKTDTIRELVKNFSQSGYEG---------KQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSR  154 (290)
T ss_pred             CCHHHHHHHHHHHhhCcccC---------CcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHc
Confidence            45678888777776655443         788999999999999999999999999999999999999999999999999


Q ss_pred             ceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q psy12150        188 CSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL  239 (456)
Q Consensus       188 ~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L  239 (456)
                      |+.+.|++ +.+++.+++.    ++|  ++.+....++..+ |++..++..+
T Consensus       155 cq~i~f~~-~~~~~~~~L~----~~g--~~~~~a~~la~~~-~s~~~A~~l~  198 (290)
T PRK07276        155 TQIFHFPK-NEAYLIQLLE----QKG--LLKTQAELLAKLA-QSTSEAEKLA  198 (290)
T ss_pred             ceeeeCCC-cHHHHHHHHH----HcC--CChHHHHHHHHHC-CCHHHHHHHh
Confidence            99999976 7777777665    345  4455555555554 5788888776

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.72  E-value=2e-15  Score=153.51  Aligned_cols=209  Identities=11%  Similarity=0.161  Sum_probs=146.2

Q ss_pred             CCCcccccc-c--HHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHH
Q psy12150         41 PKTIDDVIE-Q--QEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (456)
Q Consensus        41 P~~~~~ivg-~--~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~  115 (456)
                      +.+|+.++. .  ..+......+.++.  ..++++|||++|+|||++++++++.+........++++++.+..  ..+..
T Consensus       111 ~~tFdnFv~g~~n~~A~~aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~--~~~~~  188 (450)
T PRK14087        111 ENTFENFVIGSSNEQAFIAVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFA--RKAVD  188 (450)
T ss_pred             ccchhcccCCCcHHHHHHHHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH--HHHHH
Confidence            468888883 2  22445555665532  23449999999999999999999987543233456676664421  11111


Q ss_pred             H-------HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCcc--HHHHHHHHHHHHhcc-CcceEEEEecCcc----ccc
Q psy12150        116 K-------VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT--HAAQAALRRTMEKET-KSTRFCLICNYVS----CII  181 (456)
Q Consensus       116 ~-------l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~--~~~~~~Ll~~le~~~-~~~~lIl~~~~~~----kl~  181 (456)
                      .       +..+....           ....+|+|||++.+.  ...++.|..+++... ....+|++++...    .+.
T Consensus       189 ~l~~~~~~~~~~~~~~-----------~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~  257 (450)
T PRK14087        189 ILQKTHKEIEQFKNEI-----------CQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFD  257 (450)
T ss_pred             HHHHhhhHHHHHHHHh-----------ccCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhcc
Confidence            1       11111111           123499999999987  445666666654322 2224667777543    345


Q ss_pred             ccccCCce---EEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--C--CCCCC
Q psy12150        182 QPLTSRCS---KFRFKPLAENTMLTRLQYICEQESV--MCDFKALETLVETSGGDMRRAITCLQSCARLK--G--GEGIV  252 (456)
Q Consensus       182 ~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~--~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~--~~~It  252 (456)
                      +.|.+|+.   .+.+.+|+.+++.++|++.++..|.  .+++++++.|+..++||+|.+.+.|.++..++  .  +..||
T Consensus       258 ~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it  337 (450)
T PRK14087        258 NRLITRFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIIT  337 (450)
T ss_pred             HHHHHHHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCC
Confidence            67888865   8999999999999999999998875  69999999999999999999999999986555  2  36899


Q ss_pred             HHHHHHHhCC
Q psy12150        253 NEDVLEVTGV  262 (456)
Q Consensus       253 ~~~v~~~~~~  262 (456)
                      .+.+++++..
T Consensus       338 ~~~v~~~l~~  347 (450)
T PRK14087        338 IEIVSDLFRD  347 (450)
T ss_pred             HHHHHHHHhh
Confidence            9999988764

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.72  E-value=3.5e-15  Score=152.85  Aligned_cols=207  Identities=14%  Similarity=0.184  Sum_probs=146.3

Q ss_pred             Cccccc-c--cHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHH
Q psy12150         43 TIDDVI-E--QQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV  117 (456)
Q Consensus        43 ~~~~iv-g--~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l  117 (456)
                      +|++++ |  +......++.+.+..  ...+++||||+|+|||++++++++.+........++++++.+..  ..+...+
T Consensus       120 tfd~fv~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~--~~~~~~~  197 (450)
T PRK00149        120 TFDNFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFT--NDFVNAL  197 (450)
T ss_pred             cccccccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH--HHHHHHH
Confidence            677765 4  333556666666542  23449999999999999999999998654334467777765421  1111111


Q ss_pred             -----HHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--HHHHHHHHHHHhcc-CcceEEEEecCcc----ccccccc
Q psy12150        118 -----KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKET-KSTRFCLICNYVS----CIIQPLT  185 (456)
Q Consensus       118 -----~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--~~~~~Ll~~le~~~-~~~~lIl~~~~~~----kl~~~l~  185 (456)
                           ..+....           ....+|+|||++.+..  ..++.|...++... ....+|++++.+.    .+.+.+.
T Consensus       198 ~~~~~~~~~~~~-----------~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~  266 (450)
T PRK00149        198 RNNTMEEFKEKY-----------RSVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLR  266 (450)
T ss_pred             HcCcHHHHHHHH-----------hcCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHH
Confidence                 1111111           0233999999999854  24555665554321 1233556666432    2557788


Q ss_pred             CCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHh
Q psy12150        186 SRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVT  260 (456)
Q Consensus       186 ~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~~v~~~~  260 (456)
                      +|+.   .++|.+|+.+++.++++..++..++.+++++++.|++.++||+|.+...|..+..++  .++.||.+.+++++
T Consensus       267 SRl~~gl~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l  346 (450)
T PRK00149        267 SRFEWGLTVDIEPPDLETRIAILKKKAEEEGIDLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEAL  346 (450)
T ss_pred             hHhcCCeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHH
Confidence            9984   899999999999999999999999999999999999999999999999999887776  46789999999887


Q ss_pred             CC
Q psy12150        261 GV  262 (456)
Q Consensus       261 ~~  262 (456)
                      ..
T Consensus       347 ~~  348 (450)
T PRK00149        347 KD  348 (450)
T ss_pred             HH
Confidence            64

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.71  E-value=6.8e-16  Score=148.07  Aligned_cols=188  Identities=18%  Similarity=0.185  Sum_probs=134.3

Q ss_pred             cccccHHHHHHHHHHHh----------cCC----C-CeEEEECCCCCcHHHHHHHHHHHhcCCcc--ccceEEeeCCCCc
Q psy12150         46 DVIEQQEVVSVLKKCLS----------GAD----L-PHFLFYGPPGTGKTSTMIAACHQLFGDMY--RERILELNASDDR  108 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~----------~~~----~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~--~~~~~e~n~~~~~  108 (456)
                      +++|.+.+++.+.+.+.          .|.    + .+++|+||||||||++|+++++.+.....  ...++++++.+..
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~  102 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLV  102 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHh
Confidence            68999988887765431          111    1 25999999999999999999987753221  2246666654321


Q ss_pred             Ch--HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCc---------cHHHHHHHHHHHHhccCcceEEEEecCc
Q psy12150        109 GI--QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM---------THAAQAALRRTMEKETKSTRFCLICNYV  177 (456)
Q Consensus       109 ~~--~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l---------~~~~~~~Ll~~le~~~~~~~lIl~~~~~  177 (456)
                      +.  ......+........            ..+|||||++.|         ..+.++.|++.|++....+++|++++..
T Consensus       103 ~~~~g~~~~~~~~~~~~a~------------~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~  170 (284)
T TIGR02880       103 GQYIGHTAPKTKEILKRAM------------GGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKD  170 (284)
T ss_pred             HhhcccchHHHHHHHHHcc------------CcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcH
Confidence            10  000011122222211            139999999987         2456788999999887778777776532


Q ss_pred             -----ccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--------cCCCHHHHHHHHHHHH
Q psy12150        178 -----SCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET--------SGGDMRRAITCLQSCA  243 (456)
Q Consensus       178 -----~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~--------s~gdlr~~~~~L~~~~  243 (456)
                           ..+.+++.+|+. .++|++++.+++..+++..+++.+..+++++++.+..+        ..||.|.+.|.++.+.
T Consensus       171 ~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~~~~~l~~~a~~~L~~~l~~~~~~~~~GN~R~lrn~ve~~~  250 (284)
T TIGR02880       171 RMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKEQQYRFSAEAEEAFADYIALRRTQPHFANARSIRNAIDRAR  250 (284)
T ss_pred             HHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHH
Confidence                 234688999986 89999999999999999999999999999999988775        4699999999999876


Q ss_pred             Hh
Q psy12150        244 RL  245 (456)
Q Consensus       244 ~~  245 (456)
                      ..
T Consensus       251 ~~  252 (284)
T TIGR02880       251 LR  252 (284)
T ss_pred             HH
Confidence            54

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.

>PRK09087 hypothetical protein; Validated

Probab=99.70  E-value=7.6e-16  Score=142.63  Aligned_cols=190  Identities=16%  Similarity=0.145  Sum_probs=136.3

Q ss_pred             Ccccccc---cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHH
Q psy12150         43 TIDDVIE---QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (456)
Q Consensus        43 ~~~~ivg---~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~  119 (456)
                      +|++++.   +..++..+.++. ++..+.++|+||+|+|||++++++++...       ..+++..+ ...+    .+..
T Consensus        19 ~~~~Fi~~~~N~~a~~~l~~~~-~~~~~~l~l~G~~GsGKThLl~~~~~~~~-------~~~i~~~~-~~~~----~~~~   85 (226)
T PRK09087         19 GRDDLLVTESNRAAVSLVDHWP-NWPSPVVVLAGPVGSGKTHLASIWREKSD-------ALLIHPNE-IGSD----AANA   85 (226)
T ss_pred             ChhceeecCchHHHHHHHHhcc-cCCCCeEEEECCCCCCHHHHHHHHHHhcC-------CEEecHHH-cchH----HHHh
Confidence            6888884   445566666654 33334499999999999999999998642       22333321 0001    1111


Q ss_pred             HHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-CcceEEEEecCc---cc-ccccccCCc---eEE
Q psy12150        120 FAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-KSTRFCLICNYV---SC-IIQPLTSRC---SKF  191 (456)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-~~~~lIl~~~~~---~k-l~~~l~~r~---~~i  191 (456)
                      ..                ..+|+|||++.+.. .++.|..+++... ....+|++++..   .. ..+.+++|+   ..+
T Consensus        86 ~~----------------~~~l~iDDi~~~~~-~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~  148 (226)
T PRK09087         86 AA----------------EGPVLIEDIDAGGF-DETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVV  148 (226)
T ss_pred             hh----------------cCeEEEECCCCCCC-CHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCcee
Confidence            10                12899999998743 3455655554322 234466666532   23 468899998   699


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHhCC
Q psy12150        192 RFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       192 ~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~~v~~~~~~  262 (456)
                      ++.+|+.+++..++++.++..++.++++++++|++.++|++|.++..+.++..++  .++.||...+++++..
T Consensus       149 ~l~~pd~e~~~~iL~~~~~~~~~~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~~~it~~~~~~~l~~  221 (226)
T PRK09087        149 EIGEPDDALLSQVIFKLFADRQLYVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERKSRITRALAAEVLNE  221 (226)
T ss_pred             ecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999888876655  4688999999988864

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.70  E-value=7.6e-15  Score=148.57  Aligned_cols=207  Identities=15%  Similarity=0.201  Sum_probs=144.0

Q ss_pred             Cccccc-ccHH--HHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH-
Q psy12150         43 TIDDVI-EQQE--VVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK-  116 (456)
Q Consensus        43 ~~~~iv-g~~~--~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~-  116 (456)
                      +|++++ |...  ....+..+.+...  ..+++||||+|+|||++++++++++........++++++.+..  ..+... 
T Consensus       108 tfd~fi~g~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~--~~~~~~~  185 (405)
T TIGR00362       108 TFDNFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFT--NDFVNAL  185 (405)
T ss_pred             cccccccCCcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHH--HHHHHHH
Confidence            566644 5433  3455555555422  2349999999999999999999988654323467777665421  111111 


Q ss_pred             ----HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--HHHHHHHHHHhc-cCcceEEEEecCc----cccccccc
Q psy12150        117 ----VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--AQAALRRTMEKE-TKSTRFCLICNYV----SCIIQPLT  185 (456)
Q Consensus       117 ----l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--~~~~Ll~~le~~-~~~~~lIl~~~~~----~kl~~~l~  185 (456)
                          +..+....           ....+|+|||++.+...  .++.|...++.. .....+|++++..    ..+.+.+.
T Consensus       186 ~~~~~~~~~~~~-----------~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~  254 (405)
T TIGR00362       186 RNNKMEEFKEKY-----------RSVDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLR  254 (405)
T ss_pred             HcCCHHHHHHHH-----------HhCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhh
Confidence                11111111           02249999999998643  455566655432 1223466666643    23557788


Q ss_pred             CCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHh
Q psy12150        186 SRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVT  260 (456)
Q Consensus       186 ~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~~v~~~~  260 (456)
                      +|+.   .++|.+|+.+++..+++..++..++.+++++++.|++...||+|.+...|.++..++  .++.||.+.+++++
T Consensus       255 SRl~~g~~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L  334 (405)
T TIGR00362       255 SRFEWGLVVDIEPPDLETRLAILQKKAEEEGLELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEAL  334 (405)
T ss_pred             hhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence            8875   799999999999999999999999999999999999999999999999998887776  46789999998887


Q ss_pred             CC
Q psy12150        261 GV  262 (456)
Q Consensus       261 ~~  262 (456)
                      ..
T Consensus       335 ~~  336 (405)
T TIGR00362       335 KD  336 (405)
T ss_pred             HH
Confidence            53

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).

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=99.69  E-value=2.1e-15  Score=139.58  Aligned_cols=211  Identities=12%  Similarity=0.076  Sum_probs=142.7

Q ss_pred             CCe-EEEECCCCCcHHHHHHHHHHHhcCCccc-----------------cceEEeeC-CCCcChHHHHHHHHHHHHhhcc
Q psy12150         66 LPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR-----------------ERILELNA-SDDRGIQVIRDKVKTFAQQTAS  126 (456)
Q Consensus        66 ~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~-----------------~~~~e~n~-~~~~~~~~i~~~l~~~~~~~~~  126 (456)
                      ++| +||+||+|+||..+|.++++.+.+....                 .++..+.. ....+.+.+++....+...+..
T Consensus         6 ~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~e   85 (261)
T PRK05818          6 KTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSVE   85 (261)
T ss_pred             CCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCchh
Confidence            455 9999999999999999999998753210                 12233222 1234567777766665533321


Q ss_pred             CCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEEecCC----------
Q psy12150        127 GFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPL----------  196 (456)
Q Consensus       127 ~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~----------  196 (456)
                      .        +++||+||+++|.|+.++.++|++.+|+|++.++||++++.+.++.+.++|||+.+.|+++          
T Consensus        86 ~--------~~~KV~II~~ae~m~~~AaNaLLK~LEEPp~~t~fiLit~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~~~  157 (261)
T PRK05818         86 S--------NGKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQYVVLSKEKKVPFKVES  157 (261)
T ss_pred             c--------CCCEEEEeccHhhhCHHHHHHHHHhhcCCCCCeEEEEEECChHhCchHhhhheeeeecCChhhhccccccc
Confidence            1        2678999999999999999999999999999999999999999999999999999999888          


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHHHHcc--
Q psy12150        197 AENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV--  274 (456)
Q Consensus       197 ~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~l~~~--  274 (456)
                      ++.++.+++...   .  .+++    .++..++|++.+++..++.+ .......++..++......-....+..++..  
T Consensus       158 ~~~~i~~~L~~~---~--~~d~----~i~~~a~g~~~~a~~l~~~l-~n~~~~~~~v~kl~~~~~~~~~q~~~~~l~~l~  227 (261)
T PRK05818        158 NDRYFQYILLSF---Y--SVDE----QLQAYNNGSFSKLKNIIETL-INKKNKLIQIHKAWILFKTFSYYEIAQLLNLLI  227 (261)
T ss_pred             ChHHHHHHHHHc---c--CccH----HHHHHcCCCHHHHHHHHHHH-HcccccHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            454555544422   1  2344    67778899999999999854 2222333444444444444433333333332  


Q ss_pred             --cchHHHHHHHHHHHHhccCH
Q psy12150        275 --DSFQVLEKYIEDLILEAYSA  294 (456)
Q Consensus       275 --~~~~~a~~~~~~l~~~~~~~  294 (456)
                        ++.++-..+++-+-..++++
T Consensus       228 ~~~~~~~k~~~~~~~~~l~~n~  249 (261)
T PRK05818        228 PTVDPEKKSKLYNLLSNLKYNL  249 (261)
T ss_pred             hccCchHHHHHHHHHHhcCCCC
Confidence              55555555555554444443

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.68  E-value=3.4e-14  Score=146.38  Aligned_cols=208  Identities=16%  Similarity=0.171  Sum_probs=143.7

Q ss_pred             Ccccccc-cHH--HHHHHHHHHhcC-C-CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC--hHHHHH
Q psy12150         43 TIDDVIE-QQE--VVSVLKKCLSGA-D-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG--IQVIRD  115 (456)
Q Consensus        43 ~~~~ivg-~~~--~~~~l~~~l~~~-~-~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~--~~~i~~  115 (456)
                      +|++++. ...  ....+...+.+. . ...++|||++|+|||++++++++.+........++++++.+...  ...+.+
T Consensus       286 TFDnFvvG~sN~~A~aaa~avae~~~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~  365 (617)
T PRK14086        286 TFDTFVIGASNRFAHAAAVAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRD  365 (617)
T ss_pred             CHhhhcCCCccHHHHHHHHHHHhCccccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHh
Confidence            7888874 222  334455555432 2 22399999999999999999999875422233566666644210  011111


Q ss_pred             -HHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--HHHHHHHHHHhccC-cceEEEEecCc----ccccccccCC
Q psy12150        116 -KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--AQAALRRTMEKETK-STRFCLICNYV----SCIIQPLTSR  187 (456)
Q Consensus       116 -~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--~~~~Ll~~le~~~~-~~~lIl~~~~~----~kl~~~l~~r  187 (456)
                       .+..|....           ....+|+|||++.+...  .++.|..+++.... ...+|++++..    ..+.+.|.+|
T Consensus       366 ~~~~~f~~~y-----------~~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SR  434 (617)
T PRK14086        366 GKGDSFRRRY-----------REMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNR  434 (617)
T ss_pred             ccHHHHHHHh-----------hcCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhh
Confidence             111111110           12349999999998542  35556655543322 23455677653    2456778899


Q ss_pred             ce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHhC
Q psy12150        188 CS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVTG  261 (456)
Q Consensus       188 ~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~~v~~~~~  261 (456)
                      +.   .+++.+|+.+....+|+..++..++.++++++++|+....+|+|.+...|.++..++  .++.||.+.+++++.
T Consensus       435 f~~GLvv~I~~PD~EtR~aIL~kka~~r~l~l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~  513 (617)
T PRK14086        435 FEWGLITDVQPPELETRIAILRKKAVQEQLNAPPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLR  513 (617)
T ss_pred             hhcCceEEcCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHH
Confidence            75   899999999999999999999999999999999999999999999999999987776  467899988887774

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

Probab=99.67  E-value=1.7e-15  Score=163.50  Aligned_cols=221  Identities=19%  Similarity=0.201  Sum_probs=163.0

Q ss_pred             CCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc-----ccceEEeeC
Q psy12150         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----RERILELNA  104 (456)
Q Consensus        30 ~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~-----~~~~~e~n~  104 (456)
                      ....++.++.+|..+++++|+++.++.+.+.+......+++|+||||||||++++.+++.+.....     ...++.++.
T Consensus       167 ~~~~~l~~~~r~~~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~  246 (731)
T TIGR02639       167 KYTVDLTEKAKNGKIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDM  246 (731)
T ss_pred             HHhhhHHHHHhcCCCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecH
Confidence            356788999999999999999999999999998888778999999999999999999998744221     234566664


Q ss_pred             CCC----cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH---------HHHHHHHHHHHhccCcceEE
Q psy12150        105 SDD----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH---------AAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus       105 ~~~----~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~---------~~~~~Ll~~le~~~~~~~lI  171 (456)
                      +..    ...+...+.+..........         ...|+||||+|.+.+         +..+.|..++++.  .+.+|
T Consensus       247 ~~l~a~~~~~g~~e~~l~~i~~~~~~~---------~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g--~i~~I  315 (731)
T TIGR02639       247 GSLLAGTKYRGDFEERLKAVVSEIEKE---------PNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSG--KLRCI  315 (731)
T ss_pred             HHHhhhccccchHHHHHHHHHHHHhcc---------CCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCC--CeEEE
Confidence            331    11223334444444332111         123999999998853         3456777888753  46677


Q ss_pred             EEecC-----cccccccccCCceEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCCC------HHHHH
Q psy12150        172 LICNY-----VSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGGD------MRRAI  236 (456)
Q Consensus       172 l~~~~-----~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~----~~~~i~~~~l~~L~~~s~gd------lr~~~  236 (456)
                      .+|+.     .....+++.+|+..+.+.+|+.++...+|+.....    .++.++++++..++..++..      ++.++
T Consensus       316 gaTt~~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~ryi~~r~~P~kai  395 (731)
T TIGR02639       316 GSTTYEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSARYINDRFLPDKAI  395 (731)
T ss_pred             EecCHHHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhhcccccccCCHHHH
Confidence            77664     23467899999999999999999999999977654    45789999999999988542      77889


Q ss_pred             HHHHHHHHhhC-------CCCCCHHHHHHHhC
Q psy12150        237 TCLQSCARLKG-------GEGIVNEDVLEVTG  261 (456)
Q Consensus       237 ~~L~~~~~~~~-------~~~It~~~v~~~~~  261 (456)
                      ..++.++....       ...|+.++|..++.
T Consensus       396 ~lld~a~a~~~~~~~~~~~~~v~~~~i~~~i~  427 (731)
T TIGR02639       396 DVIDEAGASFRLRPKAKKKANVSVKDIENVVA  427 (731)
T ss_pred             HHHHHhhhhhhcCcccccccccCHHHHHHHHH
Confidence            99988765431       23589999888765

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.67  E-value=3.2e-14  Score=144.24  Aligned_cols=208  Identities=18%  Similarity=0.261  Sum_probs=144.7

Q ss_pred             cCC-CCccccc-ccHH--HHHHHHHHHhc------CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         39 YRP-KTIDDVI-EQQE--VVSVLKKCLSG------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        39 y~P-~~~~~iv-g~~~--~~~~l~~~l~~------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      ..| .+|++++ |...  ....++.+.+.      ....+++||||+|+|||++++++++.+....  ..++++++....
T Consensus       104 l~~~~tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~--~~v~yi~~~~f~  181 (445)
T PRK12422        104 LDPLMTFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRESG--GKILYVRSELFT  181 (445)
T ss_pred             CCccccccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcC--CCEEEeeHHHHH
Confidence            344 3888887 4322  33455555542      1234599999999999999999999875432  356666553211


Q ss_pred             ChHHHHHHHH-----HHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--HHHHHHHHHHHhc-cCcceEEEEecCc---
Q psy12150        109 GIQVIRDKVK-----TFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKE-TKSTRFCLICNYV---  177 (456)
Q Consensus       109 ~~~~i~~~l~-----~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--~~~~~Ll~~le~~-~~~~~lIl~~~~~---  177 (456)
                        ..+...+.     .+....           ....+++|||++.+..  ..++.|...++.. .....+|++++..   
T Consensus       182 --~~~~~~l~~~~~~~f~~~~-----------~~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~  248 (445)
T PRK12422        182 --EHLVSAIRSGEMQRFRQFY-----------RNVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQD  248 (445)
T ss_pred             --HHHHHHHhcchHHHHHHHc-----------ccCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHH
Confidence              11111111     111110           1334999999999864  3456665554421 1234566677653   


Q ss_pred             -ccccccccCCc---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH---Hhh--CC
Q psy12150        178 -SCIIQPLTSRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCA---RLK--GG  248 (456)
Q Consensus       178 -~kl~~~l~~r~---~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~---~~~--~~  248 (456)
                       ..+.+.+.+|+   ..+.+.+|+.+++..+|+..++..++.++++++++|+....+|+|.+.+.|+.++   .++  .+
T Consensus       249 l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~~~l~~evl~~la~~~~~dir~L~g~l~~l~~~~a~~~~~~  328 (445)
T PRK12422        249 LKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEALSIRIEETALDFLIEALSSNVKSLLHALTLLAKRVAYKKLSH  328 (445)
T ss_pred             HhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHhhC
Confidence             34567889998   4899999999999999999999999999999999999999999999999999985   454  46


Q ss_pred             CCCCHHHHHHHhC
Q psy12150        249 EGIVNEDVLEVTG  261 (456)
Q Consensus       249 ~~It~~~v~~~~~  261 (456)
                      ..||.+.+++++.
T Consensus       329 ~~i~~~~~~~~l~  341 (445)
T PRK12422        329 QLLYVDDIKALLH  341 (445)
T ss_pred             CCCCHHHHHHHHH
Confidence            7899999988775

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.66  E-value=3.9e-15  Score=151.68  Aligned_cols=211  Identities=15%  Similarity=0.140  Sum_probs=141.1

Q ss_pred             CCCcccccccHHHHHHHHHHHh--------cC-CCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC-
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLS--------GA-DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG-  109 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~--------~~-~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~-  109 (456)
                      +.+|+++.|.+.+++.+.+...        -| ..| ++|||||||||||.+|+++++.+..     +++.++++...+ 
T Consensus       224 ~~~~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~-----~~~~l~~~~l~~~  298 (489)
T CHL00195        224 NEKISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQL-----PLLRLDVGKLFGG  298 (489)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCC-----CEEEEEhHHhccc
Confidence            3578999999888877765321        12 223 3999999999999999999998643     556665543111 


Q ss_pred             -hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH------------HHHHHHHHHHhccCcceEEEEecC
Q psy12150        110 -IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA------------AQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       110 -~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~------------~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                       .+.-...+.........     ..||    ||+|||+|.+...            ....++..|.+....+++|.++|+
T Consensus       299 ~vGese~~l~~~f~~A~~-----~~P~----IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~  369 (489)
T CHL00195        299 IVGESESRMRQMIRIAEA-----LSPC----ILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANN  369 (489)
T ss_pred             ccChHHHHHHHHHHHHHh-----cCCc----EEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCC
Confidence             11112222222222111     1234    9999999977431            234566777766666778888899


Q ss_pred             cccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCC-CHHHHHHHHHHHHHhh--CCC
Q psy12150        177 VSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVM-CDFKALETLVETSGG-DMRRAITCLQSCARLK--GGE  249 (456)
Q Consensus       177 ~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~-i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~~~--~~~  249 (456)
                      +..+.+++.+  |+. .+.++.|+.++..++++..+++.+.. .++..++.|++.+.| +-..+.+.+..++..+  .++
T Consensus       370 ~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~lv~eA~~~A~~~~~  449 (489)
T CHL00195        370 IDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFYEKR  449 (489)
T ss_pred             hhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHHHHHHHHHHHHcCC
Confidence            9999999876  554 78999999999999999998875433 346668889988765 2333333333333322  567


Q ss_pred             CCCHHHHHHHhCCCCH
Q psy12150        250 GIVNEDVLEVTGVIPK  265 (456)
Q Consensus       250 ~It~~~v~~~~~~~~~  265 (456)
                      .++.+|+..++....+
T Consensus       450 ~lt~~dl~~a~~~~~P  465 (489)
T CHL00195        450 EFTTDDILLALKQFIP  465 (489)
T ss_pred             CcCHHHHHHHHHhcCC
Confidence            8999999988776654

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.66  E-value=5.5e-15  Score=153.14  Aligned_cols=214  Identities=21%  Similarity=0.217  Sum_probs=138.4

Q ss_pred             cchhccCCCCcccccccHHHHHHHHHHHh-----------cCCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEE
Q psy12150         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLS-----------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (456)
Q Consensus        34 ~w~eky~P~~~~~ivg~~~~~~~l~~~l~-----------~~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e  101 (456)
                      -+.+.....+|++++|.++++..+.+.+.           +...+ ++|||||||||||++++++++....     +++.
T Consensus        44 ~~~~~~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~-----~~~~  118 (495)
T TIGR01241        44 LLNEEKPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGV-----PFFS  118 (495)
T ss_pred             cccCCCCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCC-----Ceee
Confidence            34444556699999999998877776553           23333 3999999999999999999998643     4566


Q ss_pred             eeCCCCcCh--HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHHHHHHHhc-
Q psy12150        102 LNASDDRGI--QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEKE-  164 (456)
Q Consensus       102 ~n~~~~~~~--~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~Ll~~le~~-  164 (456)
                      +++++....  +.-...+.........     ..|+    ||||||+|.+...              ..+.|+..|+.. 
T Consensus       119 i~~~~~~~~~~g~~~~~l~~~f~~a~~-----~~p~----Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~  189 (495)
T TIGR01241       119 ISGSDFVEMFVGVGASRVRDLFEQAKK-----NAPC----IIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFG  189 (495)
T ss_pred             ccHHHHHHHHhcccHHHHHHHHHHHHh-----cCCC----EEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhcccc
Confidence            655432110  0001122222222111     1233    9999999988532              223444445432 


Q ss_pred             -cCcceEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHH
Q psy12150        165 -TKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCL  239 (456)
Q Consensus       165 -~~~~~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L  239 (456)
                       ...+++|.++|.+..+.+++.+  |+. .+.++.|+.++..++++..++..+.. ++..+..++..+.| +.+.+.+.+
T Consensus       190 ~~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~G~sgadl~~l~  268 (495)
T TIGR01241       190 TNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLA-PDVDLKAVARRTPGFSGADLANLL  268 (495)
T ss_pred             CCCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCC-cchhHHHHHHhCCCCCHHHHHHHH
Confidence             2346778888889999999987  443 79999999999999999888764433 34456788888765 334444444


Q ss_pred             HHHHHhh---CCCCCCHHHHHHHhCC
Q psy12150        240 QSCARLK---GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       240 ~~~~~~~---~~~~It~~~v~~~~~~  262 (456)
                      +.++..+   +...|+.+++..++..
T Consensus       269 ~eA~~~a~~~~~~~i~~~~l~~a~~~  294 (495)
T TIGR01241       269 NEAALLAARKNKTEITMNDIEEAIDR  294 (495)
T ss_pred             HHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            4443322   4567999999987653

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.

>KOG0730|consensus

Probab=99.65  E-value=2.8e-15  Score=151.40  Aligned_cols=202  Identities=21%  Similarity=0.251  Sum_probs=139.1

Q ss_pred             CCCcccccccHHHHHHHHHHHh-----------cC-CCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC-
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLS-----------GA-DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD-  106 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~-----------~~-~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~-  106 (456)
                      .-+|++|-|+++++..|++.+.           -| .+| .+|||||||||||++|++++++...     +++.+.+.+ 
T Consensus       430 ~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~-----nFlsvkgpEL  504 (693)
T KOG0730|consen  430 NVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGM-----NFLSVKGPEL  504 (693)
T ss_pred             CCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcC-----CeeeccCHHH
Confidence            3589999999999999987763           12 233 3999999999999999999998644     455554433 


Q ss_pred             -----CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH-----------HHHHHHHHHhc--cCcc
Q psy12150        107 -----DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA-----------QAALRRTMEKE--TKST  168 (456)
Q Consensus       107 -----~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~-----------~~~Ll~~le~~--~~~~  168 (456)
                           ..+...+++.+....+.+         ||    |||+||+|.+..+.           .+.|+.-|+..  ..++
T Consensus       505 ~sk~vGeSEr~ir~iF~kAR~~a---------P~----IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V  571 (693)
T KOG0730|consen  505 FSKYVGESERAIREVFRKARQVA---------PC----IIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNV  571 (693)
T ss_pred             HHHhcCchHHHHHHHHHHHhhcC---------Ce----EEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcE
Confidence                 122233444433333222         22    99999999986542           33444444322  2467


Q ss_pred             eEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC-CHHHHHHHHHHHH
Q psy12150        169 RFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGG-DMRRAITCLQSCA  243 (456)
Q Consensus       169 ~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~-~l~~L~~~s~g-dlr~~~~~L~~~~  243 (456)
                      .+|.++|.+..+.+++.+  |+. .+.+++|+.+...++++..+++  .+++++ .++.|++.+.| +-..+...++.++
T Consensus       572 ~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kk--mp~~~~vdl~~La~~T~g~SGAel~~lCq~A~  649 (693)
T KOG0730|consen  572 LVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKK--MPFSEDVDLEELAQATEGYSGAEIVAVCQEAA  649 (693)
T ss_pred             EEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhc--CCCCccccHHHHHHHhccCChHHHHHHHHHHH
Confidence            777788889999999998  444 7899999999999999988875  455655 78889998876 4556677777777


Q ss_pred             Hhh-----CCCCCCHHHHHHHhCC
Q psy12150        244 RLK-----GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       244 ~~~-----~~~~It~~~v~~~~~~  262 (456)
                      .++     ....|+.++..+++..
T Consensus       650 ~~a~~e~i~a~~i~~~hf~~al~~  673 (693)
T KOG0730|consen  650 LLALRESIEATEITWQHFEEALKA  673 (693)
T ss_pred             HHHHHHhcccccccHHHHHHHHHh
Confidence            766     2334555555555443

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

Probab=99.64  E-value=5.9e-15  Score=148.23  Aligned_cols=216  Identities=17%  Similarity=0.210  Sum_probs=139.1

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhc------------CCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccc
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG------------ADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRER   98 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~------------~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~   98 (456)
                      ...+.+++.+.+|+++.|.+..++.+.+++.-            ...+ +++||||||||||++++++++.+..     .
T Consensus       170 ~~~~~~~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~-----~  244 (438)
T PTZ00361        170 SVMKVDKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSA-----T  244 (438)
T ss_pred             hhcccccCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCC-----C
Confidence            34567777778999999999999999887741            1222 3999999999999999999998754     3


Q ss_pred             eEEeeCCCCcC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHH---H
Q psy12150         99 ILELNASDDRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTM---E  162 (456)
Q Consensus        99 ~~e~n~~~~~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~l---e  162 (456)
                      ++.+..++...  .+.-...+......+..     ..|+    +|||||+|.+..           +.+..++.++   +
T Consensus       245 fi~V~~seL~~k~~Ge~~~~vr~lF~~A~~-----~~P~----ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ld  315 (438)
T PTZ00361        245 FLRVVGSELIQKYLGDGPKLVRELFRVAEE-----NAPS----IVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLD  315 (438)
T ss_pred             EEEEecchhhhhhcchHHHHHHHHHHHHHh-----CCCc----EEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHh
Confidence            55555544211  11111122222222211     1233    999999987742           1233344443   3


Q ss_pred             h--ccCcceEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHH
Q psy12150        163 K--ETKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAI  236 (456)
Q Consensus       163 ~--~~~~~~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~  236 (456)
                      .  ....+.+|+++|....+.+++.+  |+. .++|++|+.++..++++..+.+.... ++-.++.++..+.| +...+.
T Consensus       316 g~~~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~-~dvdl~~la~~t~g~sgAdI~  394 (438)
T PTZ00361        316 GFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLA-EDVDLEEFIMAKDELSGADIK  394 (438)
T ss_pred             hhcccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCC-cCcCHHHHHHhcCCCCHHHHH
Confidence            2  23467788899988889888875  443 89999999999999999887765432 12235556655543 333344


Q ss_pred             HHHHHHHHhh---CCCCCCHHHHHHHhCC
Q psy12150        237 TCLQSCARLK---GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       237 ~~L~~~~~~~---~~~~It~~~v~~~~~~  262 (456)
                      +.+..++..+   +...|+.+|+..++..
T Consensus       395 ~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~  423 (438)
T PTZ00361        395 AICTEAGLLALRERRMKVTQADFRKAKEK  423 (438)
T ss_pred             HHHHHHHHHHHHhcCCccCHHHHHHHHHH
Confidence            4444444433   5678999999877654

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.64  E-value=8.3e-15  Score=146.82  Aligned_cols=207  Identities=19%  Similarity=0.237  Sum_probs=135.9

Q ss_pred             CCcccccccHHHHHHHHHHHhc------------CCC-CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSG------------ADL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~------------~~~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      .+|+++.|.+..++.+.+.+..            ..+ .++|||||||||||++|+++++.+..     .++.+++++..
T Consensus       128 ~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~-----~~i~v~~~~l~  202 (389)
T PRK03992        128 VTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA-----TFIRVVGSELV  202 (389)
T ss_pred             CCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCC-----CEEEeehHHHh
Confidence            4789999999999999887631            122 33999999999999999999998754     46666655421


Q ss_pred             C--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCcc-----------HHHHHHHHHHHHh-----ccCcceE
Q psy12150        109 G--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT-----------HAAQAALRRTMEK-----ETKSTRF  170 (456)
Q Consensus       109 ~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~-----------~~~~~~Ll~~le~-----~~~~~~l  170 (456)
                      .  .+.....+.........     ..|    .+|||||+|.+.           .+.+..+..++..     ....+++
T Consensus       203 ~~~~g~~~~~i~~~f~~a~~-----~~p----~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~V  273 (389)
T PRK03992        203 QKFIGEGARLVRELFELARE-----KAP----SIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKI  273 (389)
T ss_pred             HhhccchHHHHHHHHHHHHh-----cCC----eEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEE
Confidence            1  11111222222222111     112    399999999984           2334455555532     1245778


Q ss_pred             EEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHhh
Q psy12150        171 CLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCARLK  246 (456)
Q Consensus       171 Il~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~~~  246 (456)
                      |.++|.+..+.+++.+  |+. .++|++|+.++..++++.+++..... .+..+..++..+.| ..+.+...+..++..+
T Consensus       274 I~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~-~~~~~~~la~~t~g~sgadl~~l~~eA~~~a  352 (389)
T PRK03992        274 IAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLA-DDVDLEELAELTEGASGADLKAICTEAGMFA  352 (389)
T ss_pred             EEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCC-CcCCHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            8888988888888875  554 79999999999999999887654332 12346777887765 3344444444444433


Q ss_pred             ---CCCCCCHHHHHHHhCCC
Q psy12150        247 ---GGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       247 ---~~~~It~~~v~~~~~~~  263 (456)
                         +...|+.+|+.+++...
T Consensus       353 ~~~~~~~i~~~d~~~A~~~~  372 (389)
T PRK03992        353 IRDDRTEVTMEDFLKAIEKV  372 (389)
T ss_pred             HHcCCCCcCHHHHHHHHHHH
Confidence               45679999998877654

>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=99.63  E-value=3.9e-15  Score=137.38  Aligned_cols=191  Identities=18%  Similarity=0.245  Sum_probs=126.0

Q ss_pred             Cccccc-c--cHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHH
Q psy12150         43 TIDDVI-E--QQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV  117 (456)
Q Consensus        43 ~~~~iv-g--~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l  117 (456)
                      ||+.++ |  ++.+............  ..+++||||+|+|||++++++++++........++++++.+..  ..+...+
T Consensus         6 tFdnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~--~~~~~~~   83 (219)
T PF00308_consen    6 TFDNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFI--REFADAL   83 (219)
T ss_dssp             SCCCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHH--HHHHHHH
T ss_pred             ccccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHH--HHHHHHH
Confidence            788886 4  3444555665555433  2349999999999999999999987542223467777664311  1111111


Q ss_pred             -----HHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH--HHHHHHHHHhcc-CcceEEEEecC-cc---ccccccc
Q psy12150        118 -----KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA--QAALRRTMEKET-KSTRFCLICNY-VS---CIIQPLT  185 (456)
Q Consensus       118 -----~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~--~~~Ll~~le~~~-~~~~lIl~~~~-~~---kl~~~l~  185 (456)
                           ..+....           ....+++|||++.+....  ++.|..+++... ....+|++++. +.   .+.+.+.
T Consensus        84 ~~~~~~~~~~~~-----------~~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~  152 (219)
T PF00308_consen   84 RDGEIEEFKDRL-----------RSADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLR  152 (219)
T ss_dssp             HTTSHHHHHHHH-----------CTSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHH
T ss_pred             Hcccchhhhhhh-----------hcCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhh
Confidence                 1111111           133599999999997653  677776665421 22346666654 32   3456677


Q ss_pred             CCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy12150        186 SRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (456)
Q Consensus       186 ~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~  246 (456)
                      +|..   .+++.+|+.++..+++++.+...|+.+++++++.|++..++|+|.+...|.++..++
T Consensus       153 SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~l~~~v~~~l~~~~~~~~r~L~~~l~~l~~~~  216 (219)
T PF00308_consen  153 SRLSWGLVVELQPPDDEDRRRILQKKAKERGIELPEEVIEYLARRFRRDVRELEGALNRLDAYA  216 (219)
T ss_dssp             HHHHCSEEEEE----HHHHHHHHHHHHHHTT--S-HHHHHHHHHHTTSSHHHHHHHHHHHHHHH
T ss_pred             hhHhhcchhhcCCCCHHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhcCCHHHHHHHHHHHHHHh
Confidence            8854   899999999999999999999999999999999999999999999999999987764

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.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.63  E-value=1.6e-14  Score=146.72  Aligned_cols=207  Identities=14%  Similarity=0.180  Sum_probs=144.2

Q ss_pred             Cccccc-ccH--HHHHHHHHHHhc-CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH--
Q psy12150         43 TIDDVI-EQQ--EVVSVLKKCLSG-ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK--  116 (456)
Q Consensus        43 ~~~~iv-g~~--~~~~~l~~~l~~-~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~--  116 (456)
                      +|++++ |..  ........+..+ +.+.+++||||+|+|||++++++++.+........++++++.+..  ..+...  
T Consensus       103 tFdnFv~g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~--~~~~~~~~  180 (440)
T PRK14088        103 TFENFVVGPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFL--NDLVDSMK  180 (440)
T ss_pred             cccccccCCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH--HHHHHHHh
Confidence            788887 432  334555555553 233459999999999999999999987653333466777664311  111111  


Q ss_pred             ---HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--HHHHHHHHHHHhcc-CcceEEEEecC-c---ccccccccC
Q psy12150        117 ---VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKET-KSTRFCLICNY-V---SCIIQPLTS  186 (456)
Q Consensus       117 ---l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--~~~~~Ll~~le~~~-~~~~lIl~~~~-~---~kl~~~l~~  186 (456)
                         +..+.....          ....+++|||++.+.+  ..++.|...+.... ....+|++++. +   ..+.+.+.+
T Consensus       181 ~~~~~~f~~~~~----------~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~S  250 (440)
T PRK14088        181 EGKLNEFREKYR----------KKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVS  250 (440)
T ss_pred             cccHHHHHHHHH----------hcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhh
Confidence               111211110          0234999999998853  23455555554321 12345566653 3   235677888


Q ss_pred             Cce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHHHHHhC
Q psy12150        187 RCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDVLEVTG  261 (456)
Q Consensus       187 r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~~v~~~~~  261 (456)
                      |+.   .+.+.+|+.+....++++.++.+++.+++++++.|++..+||+|.+...|.++..++  .++.||.+.+.+++.
T Consensus       251 R~~~gl~v~i~~pd~e~r~~IL~~~~~~~~~~l~~ev~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~it~~~a~~~L~  330 (440)
T PRK14088        251 RFQMGLVAKLEPPDEETRKKIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAILLLK  330 (440)
T ss_pred             HHhcCceEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHhccccCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence            876   899999999999999999999999999999999999999999999999999987766  467899998887775

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.63  E-value=3.3e-14  Score=133.86  Aligned_cols=122  Identities=20%  Similarity=0.245  Sum_probs=104.5

Q ss_pred             EEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC------------cccccccccCCceEEEecCCCHHHHHHHHH
Q psy12150        139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY------------VSCIIQPLTSRCSKFRFKPLAENTMLTRLQ  206 (456)
Q Consensus       139 ~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~------------~~kl~~~l~~r~~~i~f~~~~~~el~~~l~  206 (456)
                      .|+||||+|.|.-+++..|.+.||..- .+++|+++|.            |+-+...|..|...+...|++.++++.+++
T Consensus       293 GVLFIDEvHmLDIE~FsFlnrAlEse~-aPIii~AtNRG~~kiRGTd~~sPhGIP~DlLDRllII~t~py~~~EireIi~  371 (450)
T COG1224         293 GVLFIDEVHMLDIECFSFLNRALESEL-APIIILATNRGMTKIRGTDIESPHGIPLDLLDRLLIISTRPYSREEIREIIR  371 (450)
T ss_pred             ceEEEechhhhhHHHHHHHHHHhhccc-CcEEEEEcCCceeeecccCCcCCCCCCHhhhhheeEEecCCCCHHHHHHHHH
Confidence            399999999999999999999998653 4667788874            455777899999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        207 YICEQESVMCDFKALETLVETS-GGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       207 ~~~~~~~~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      .+++.+++.+++++++.|+... ..++|.+++.|.-+...+   +++.|..+||..+-.
T Consensus       372 iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a~~  430 (450)
T COG1224         372 IRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAKE  430 (450)
T ss_pred             HhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHHH
Confidence            9999999999999999999875 568999999997554444   577899999987653

>CHL00176 ftsH cell division protein; Validated

Probab=99.63  E-value=1.9e-14  Score=151.24  Aligned_cols=207  Identities=19%  Similarity=0.207  Sum_probs=138.2

Q ss_pred             CCCcccccccHHHHHHHHHHH---hc--------CC-CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCL---SG--------AD-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l---~~--------~~-~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      ..+|+++.|.++.+..+.+.+   +.        .. +.++||+||||||||+++++++.....     +++.+++++..
T Consensus       179 ~~~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~-----p~i~is~s~f~  253 (638)
T CHL00176        179 GITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEV-----PFFSISGSEFV  253 (638)
T ss_pred             CCCHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CeeeccHHHHH
Confidence            358999999998887776664   21        12 234999999999999999999998643     56666665421


Q ss_pred             Ch--HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HH---HHHHHHHHHhc--cCcceE
Q psy12150        109 GI--QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AA---QAALRRTMEKE--TKSTRF  170 (456)
Q Consensus       109 ~~--~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~---~~~Ll~~le~~--~~~~~l  170 (456)
                      ..  +.-...+..+.....     ...||    ||||||+|.+..           ..   ...|+..++..  ...+++
T Consensus       254 ~~~~g~~~~~vr~lF~~A~-----~~~P~----ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViV  324 (638)
T CHL00176        254 EMFVGVGAARVRDLFKKAK-----ENSPC----IVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIV  324 (638)
T ss_pred             HHhhhhhHHHHHHHHHHHh-----cCCCc----EEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeE
Confidence            10  111112222222221     12344    999999998842           22   23344444432  345678


Q ss_pred             EEEecCcccccccccCCc---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHhh
Q psy12150        171 CLICNYVSCIIQPLTSRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCARLK  246 (456)
Q Consensus       171 Il~~~~~~kl~~~l~~r~---~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~~~  246 (456)
                      |.++|.+..+.+++.+++   ..+.|..|+.++...+++.+++.... .++..+..+++.+.| +.+.+.+.+..++..+
T Consensus       325 IaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~-~~d~~l~~lA~~t~G~sgaDL~~lvneAal~a  403 (638)
T CHL00176        325 IAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKL-SPDVSLELIARRTPGFSGADLANLLNEAAILT  403 (638)
T ss_pred             EEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhccc-chhHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Confidence            888888888888888654   38999999999999999999887332 346678889998887 5555555555544332


Q ss_pred             ---CCCCCCHHHHHHHhCC
Q psy12150        247 ---GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       247 ---~~~~It~~~v~~~~~~  262 (456)
                         +...|+.+++.+++.+
T Consensus       404 ~r~~~~~It~~dl~~Ai~r  422 (638)
T CHL00176        404 ARRKKATITMKEIDTAIDR  422 (638)
T ss_pred             HHhCCCCcCHHHHHHHHHH
Confidence               5667999999988754

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.62  E-value=1.4e-14  Score=157.61  Aligned_cols=207  Identities=16%  Similarity=0.159  Sum_probs=150.8

Q ss_pred             CCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc-----ccceEEeeC
Q psy12150         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----RERILELNA  104 (456)
Q Consensus        30 ~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~-----~~~~~e~n~  104 (456)
                      ....++.++.||.++++++|+++.++++...+.+...++.+|+||||||||++++.+++.+..+..     ...++.++.
T Consensus       172 ~~~~~L~~~~r~~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l  251 (852)
T TIGR03345       172 QYTTDLTAQAREGKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDL  251 (852)
T ss_pred             HHhhhHHHHhcCCCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeeh
Confidence            345677888899999999999999999999998888888999999999999999999998854322     233454444


Q ss_pred             CCC----cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----HHH---HHHHHHHHhccCcceEEE
Q psy12150        105 SDD----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----AAQ---AALRRTMEKETKSTRFCL  172 (456)
Q Consensus       105 ~~~----~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----~~~---~~Ll~~le~~~~~~~lIl  172 (456)
                      +..    ...+...+.+..........    +    ...|+||||+|.+.+     ..+   +.|..++++.  ...+|.
T Consensus       252 ~~l~ag~~~~ge~e~~lk~ii~e~~~~----~----~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G--~l~~Ig  321 (852)
T TIGR03345       252 GLLQAGASVKGEFENRLKSVIDEVKAS----P----QPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARG--ELRTIA  321 (852)
T ss_pred             hhhhcccccchHHHHHHHHHHHHHHhc----C----CCeEEEEeChHHhccCCCccccccHHHHhhHHhhCC--CeEEEE
Confidence            331    12233444444443332111    1    234999999999964     222   3577777754  466666


Q ss_pred             EecC-----cccccccccCCceEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCCC------HHHHHH
Q psy12150        173 ICNY-----VSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGGD------MRRAIT  237 (456)
Q Consensus       173 ~~~~-----~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~----~~~~i~~~~l~~L~~~s~gd------lr~~~~  237 (456)
                      +|+.     .....++|.+||+.|.+++|+.++...+|+.....    .++.++++++..++..+.+.      +..++.
T Consensus       322 aTT~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~~r~LPDKAId  401 (852)
T TIGR03345       322 ATTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQLPDKAVS  401 (852)
T ss_pred             ecCHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccccccccCccHHHH
Confidence            6664     23468899999999999999999999997665543    46889999999999998653      567899


Q ss_pred             HHHHHHHhh
Q psy12150        238 CLQSCARLK  246 (456)
Q Consensus       238 ~L~~~~~~~  246 (456)
                      .|+.++...
T Consensus       402 lldea~a~~  410 (852)
T TIGR03345       402 LLDTACARV  410 (852)
T ss_pred             HHHHHHHHH
Confidence            998876544

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.

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

Probab=99.61  E-value=2.4e-14  Score=142.96  Aligned_cols=207  Identities=19%  Similarity=0.203  Sum_probs=135.2

Q ss_pred             CCCcccccccHHHHHHHHHHHh----------c-C-CC-CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLS----------G-A-DL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~----------~-~-~~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      .-+|+++.|.+..++.+++.+.          . | .+ .+++||||||||||++++++++.+..     .++.+.++..
T Consensus       141 ~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~-----~fi~i~~s~l  215 (398)
T PTZ00454        141 DVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTA-----TFIRVVGSEF  215 (398)
T ss_pred             CCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEehHHH
Confidence            3589999999999988887763          1 1 12 23999999999999999999998644     3444443321


Q ss_pred             c--ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHH---HHh--ccCcce
Q psy12150        108 R--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRT---MEK--ETKSTR  169 (456)
Q Consensus       108 ~--~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~---le~--~~~~~~  169 (456)
                      .  ..+.-...+.........     ..|    .||||||+|.+..           ..+..+..+   ++.  ....++
T Consensus       216 ~~k~~ge~~~~lr~lf~~A~~-----~~P----~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~  286 (398)
T PTZ00454        216 VQKYLGEGPRMVRDVFRLARE-----NAP----SIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVK  286 (398)
T ss_pred             HHHhcchhHHHHHHHHHHHHh-----cCC----eEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEE
Confidence            0  011111122222222111     123    3999999998742           123333343   332  234577


Q ss_pred             EEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHh
Q psy12150        170 FCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCARL  245 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~~  245 (456)
                      +|+++|.++.+.+++.+  |+. .++|+.|+.++...+++..+.+.+.. .+-.++.++..+.| +...+.+.++.+...
T Consensus       287 VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~-~dvd~~~la~~t~g~sgaDI~~l~~eA~~~  365 (398)
T PTZ00454        287 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLS-EEVDLEDFVSRPEKISAADIAAICQEAGMQ  365 (398)
T ss_pred             EEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCC-cccCHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            88899999999999876  543 79999999999999999888765543 23346777877755 455556666666554


Q ss_pred             h---CCCCCCHHHHHHHhCC
Q psy12150        246 K---GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       246 ~---~~~~It~~~v~~~~~~  262 (456)
                      +   +...|+.+|+.+++..
T Consensus       366 A~r~~~~~i~~~df~~A~~~  385 (398)
T PTZ00454        366 AVRKNRYVILPKDFEKGYKT  385 (398)
T ss_pred             HHHcCCCccCHHHHHHHHHH
Confidence            4   4568999998877643

>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []

Probab=99.61  E-value=6.2e-15  Score=116.21  Aligned_cols=86  Identities=36%  Similarity=0.544  Sum_probs=76.5

Q ss_pred             cCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChh
Q psy12150        362 GVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEY  438 (456)
Q Consensus       362 g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~  438 (456)
                      |.|||..++++++   +++|.+++..+++++..|||..||+++||+.+.+. ++|+..|.++++.+|++|+||+.|+++.
T Consensus         1 ~~p~~~~i~~i~~~~~~~~~~~~~~~~~~l~~~G~s~~~Il~~l~~~l~~~-~~~~~~k~~i~~~la~~e~rl~~G~~e~   79 (89)
T PF08542_consen    1 DWPPPEVIEEILESCLNGDFKEARKKLYELLVEGYSASDILKQLHEVLVES-DIPDSQKAEILKILAEIEYRLSDGASEI   79 (89)
T ss_dssp             TS--HHHHHHHHHHHHHTCHHHHHHHHHHHHHTT--HHHHHHHHHHHHHTS-TSSHHHHHHHHHHHHHHHHHHHTTC-HH
T ss_pred             CCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHh-hccHHHHHHHHHHHHHHhHHHHCCCCHH
Confidence            5688888988885   58999999999999988999999999999999998 8999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy12150        439 IQILDLGSIV  448 (456)
Q Consensus       439 ~ql~~l~~~~  448 (456)
                      +|+.+++++|
T Consensus        80 lQl~alva~~   89 (89)
T PF08542_consen   80 LQLEALVAAF   89 (89)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHhhC
Confidence            9999999987

PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.

>KOG0733|consensus

Probab=99.60  E-value=1.4e-14  Score=144.59  Aligned_cols=185  Identities=21%  Similarity=0.226  Sum_probs=130.0

Q ss_pred             CcccccccHHHHHHHHHHHh----------cCC-CCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC-
Q psy12150         43 TIDDVIEQQEVVSVLKKCLS----------GAD-LPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG-  109 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~----------~~~-~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~-  109 (456)
                      +|+++-|.+..+.+|.+.+-          -|- +|. +|||||||||||.+|++++.++.-     +++.+++....+ 
T Consensus       188 ~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~v-----Pf~~isApeivSG  262 (802)
T KOG0733|consen  188 SFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGV-----PFLSISAPEIVSG  262 (802)
T ss_pred             chhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCC-----ceEeecchhhhcc
Confidence            58999999999988877652          122 333 999999999999999999999743     566666654211 


Q ss_pred             -hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH-----------HHHHHHHHHhc------cCcceEE
Q psy12150        110 -IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA-----------QAALRRTMEKE------TKSTRFC  171 (456)
Q Consensus       110 -~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~-----------~~~Ll~~le~~------~~~~~lI  171 (456)
                       .++-.+.+++++..+...     .||    ||||||+|.+++..           ...|+..|++.      ...+++|
T Consensus       263 vSGESEkkiRelF~~A~~~-----aPc----ivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVI  333 (802)
T KOG0733|consen  263 VSGESEKKIRELFDQAKSN-----APC----IVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGDPVLVI  333 (802)
T ss_pred             cCcccHHHHHHHHHHHhcc-----CCe----EEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCCCeEEE
Confidence             122233444444333222     355    99999999998642           23455566543      2346677


Q ss_pred             EEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy12150        172 LICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSC  242 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~  242 (456)
                      .++|.+..+.++|++-+.   .|.+.-|++.+..++|+.+|+.-...- +-.+..|+..++|.+..-+..|-..
T Consensus       334 gATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g-~~d~~qlA~lTPGfVGADL~AL~~~  406 (802)
T KOG0733|consen  334 GATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSG-DFDFKQLAKLTPGFVGADLMALCRE  406 (802)
T ss_pred             ecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCC-CcCHHHHHhcCCCccchhHHHHHHH
Confidence            778889999999987654   799999999999999999998644432 3346789999999877766665443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.58  E-value=5e-14  Score=140.55  Aligned_cols=207  Identities=16%  Similarity=0.194  Sum_probs=131.7

Q ss_pred             CCCcccccccHHHHHHHHHHHhc------------CC-CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLSG------------AD-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~~------------~~-~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      .-+|+++.|.+..++.+.+++..            .. +.+++||||||||||++++++++.+...     ++.+.+...
T Consensus       118 ~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~-----~~~v~~~~l  192 (364)
T TIGR01242       118 NVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT-----FIRVVGSEL  192 (364)
T ss_pred             CCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCC-----EEecchHHH
Confidence            45789999999999999887642            11 2339999999999999999999987543     444433221


Q ss_pred             cC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHh-----ccCcce
Q psy12150        108 RG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK-----ETKSTR  169 (456)
Q Consensus       108 ~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~-----~~~~~~  169 (456)
                      ..  .......+.........     ..|    .+|||||+|.+..           ..+..+.+++..     ....++
T Consensus       193 ~~~~~g~~~~~i~~~f~~a~~-----~~p----~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~  263 (364)
T TIGR01242       193 VRKYIGEGARLVREIFELAKE-----KAP----SIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVK  263 (364)
T ss_pred             HHHhhhHHHHHHHHHHHHHHh-----cCC----cEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEE
Confidence            00  11111122222222111     122    2999999998842           233445454432     134677


Q ss_pred             EEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHHHHh
Q psy12150        170 FCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGD-MRRAITCLQSCARL  245 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gd-lr~~~~~L~~~~~~  245 (456)
                      +|+++|.+..+.+++.+  |+. .++|+.|+.++..++++..+...... ++..+..+++.+.|- .+.+.+.+..+...
T Consensus       264 vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~-~~~~~~~la~~t~g~sg~dl~~l~~~A~~~  342 (364)
T TIGR01242       264 VIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLA-EDVDLEAIAKMTEGASGADLKAICTEAGMF  342 (364)
T ss_pred             EEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCC-ccCCHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            88889988888888875  443 79999999999999998877543322 122467778877653 23344444444333


Q ss_pred             h---CCCCCCHHHHHHHhCC
Q psy12150        246 K---GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       246 ~---~~~~It~~~v~~~~~~  262 (456)
                      +   +...|+.+|+.+++..
T Consensus       343 a~~~~~~~i~~~d~~~a~~~  362 (364)
T TIGR01242       343 AIREERDYVTMDDFIKAVEK  362 (364)
T ss_pred             HHHhCCCccCHHHHHHHHHH
Confidence            3   5678999999887653

Many proteins may score above the trusted cutoff because an internal

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=99.58  E-value=7e-14  Score=137.50  Aligned_cols=215  Identities=17%  Similarity=0.251  Sum_probs=150.8

Q ss_pred             cchhccCCCCcccccc---cHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         34 PWVEKYRPKTIDDVIE---QQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        34 ~w~eky~P~~~~~ivg---~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      ....+|   +|++++.   +..+......+.+..  ..++++|||+.|+|||++++++++.......+..++++...+..
T Consensus        79 ~l~~~y---tFdnFv~g~~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~  155 (408)
T COG0593          79 GLNPKY---TFDNFVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFT  155 (408)
T ss_pred             cCCCCC---chhheeeCCchHHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHH
Confidence            344455   4555553   333444555555533  24559999999999999999999998776555566666554421


Q ss_pred             C--hHHHH-HHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--HHHHHHHHHHhccCc-ceEEEEecCccc---
Q psy12150        109 G--IQVIR-DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--AQAALRRTMEKETKS-TRFCLICNYVSC---  179 (456)
Q Consensus       109 ~--~~~i~-~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--~~~~Ll~~le~~~~~-~~lIl~~~~~~k---  179 (456)
                      .  ...++ +.+..|-...            ...+++|||++++...  .++.+...++.-... -.+|++++.+.+   
T Consensus       156 ~~~v~a~~~~~~~~Fk~~y------------~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~  223 (408)
T COG0593         156 NDFVKALRDNEMEKFKEKY------------SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELN  223 (408)
T ss_pred             HHHHHHHHhhhHHHHHHhh------------ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhc
Confidence            1  11111 1222222222            1239999999998764  366665555432211 256677765432   


Q ss_pred             -ccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCH
Q psy12150        180 -IIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVN  253 (456)
Q Consensus       180 -l~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~  253 (456)
                       +.+.|+||+.   .+++.+|+.+....+|+..+...++.++++++..++....+|+|.+...|.++..++  .+..||.
T Consensus       224 ~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~~i~~ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi  303 (408)
T COG0593         224 GLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITI  303 (408)
T ss_pred             cccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcH
Confidence             4567888865   899999999999999999999999999999999999999999999999999998887  4668999


Q ss_pred             HHHHHHhCCC
Q psy12150        254 EDVLEVTGVI  263 (456)
Q Consensus       254 ~~v~~~~~~~  263 (456)
                      +.+.+++...
T Consensus       304 ~~v~e~L~~~  313 (408)
T COG0593         304 DLVKEILKDL  313 (408)
T ss_pred             HHHHHHHHHh
Confidence            9998877543

>TIGR00763 lon ATP-dependent protease La

Probab=99.55  E-value=1.2e-13  Score=150.04  Aligned_cols=203  Identities=20%  Similarity=0.236  Sum_probs=135.8

Q ss_pred             cccccHHHHHHHHHHHhc----C--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHH-----
Q psy12150         46 DVIEQQEVVSVLKKCLSG----A--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIR-----  114 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~----~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~-----  114 (456)
                      +++|++.+++.+.+++..    +  +.++++|+||||||||++++++++.+..     +++.++.........+.     
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~-----~~~~i~~~~~~~~~~i~g~~~~  395 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNR-----KFVRFSLGGVRDEAEIRGHRRT  395 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcC-----CeEEEeCCCcccHHHHcCCCCc
Confidence            578999999998887642    1  2345999999999999999999999854     34455443322211111     


Q ss_pred             ------HHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH----HHHHHHHHHhc---------------cCcce
Q psy12150        115 ------DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA----QAALRRTMEKE---------------TKSTR  169 (456)
Q Consensus       115 ------~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~----~~~Ll~~le~~---------------~~~~~  169 (456)
                            ..+........          ....||+|||+|.+.+..    .+.|++.|+..               ...++
T Consensus       396 ~~g~~~g~i~~~l~~~~----------~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~  465 (775)
T TIGR00763       396 YVGAMPGRIIQGLKKAK----------TKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVI  465 (775)
T ss_pred             eeCCCCchHHHHHHHhC----------cCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEE
Confidence                  01111111110          022399999999997532    36677777530               13577


Q ss_pred             EEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHH-----HH-----cCCCCCHHHHHHHHHHcC--CCHHHHHH
Q psy12150        170 FCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYIC-----EQ-----ESVMCDFKALETLVETSG--GDMRRAIT  237 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~-----~~-----~~~~i~~~~l~~L~~~s~--gdlr~~~~  237 (456)
                      ||+++|....+.++|++|+..++|++++.++...+++..+     +.     +++.++++++..|++...  ..+|.+.+
T Consensus       466 ~I~TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l~~~~~~~~~l~~~~~~~~~~~l~~i~~~~~~e~g~R~l~r  545 (775)
T TIGR00763       466 FIATANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYLIPKALEDHGLKPDELKITDEALLLLIKYYTREAGVRNLER  545 (775)
T ss_pred             EEEecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHHHHHHHHHcCCCcceEEECHHHHHHHHHhcChhcCChHHHH
Confidence            8889999999999999999999999999999988887654     22     245789999999997542  35666666


Q ss_pred             HHHHHHHhh-------CC--------CCCCHHHHHHHhCCC
Q psy12150        238 CLQSCARLK-------GG--------EGIVNEDVLEVTGVI  263 (456)
Q Consensus       238 ~L~~~~~~~-------~~--------~~It~~~v~~~~~~~  263 (456)
                      .+++++...       +.        -.|+.+++...++..
T Consensus       546 ~i~~~~~~~~~~~~~~~~~~~~~~~~v~i~~~~~~~~lg~~  586 (775)
T TIGR00763       546 QIEKICRKAAVKLVEQGEKKKSEAESVVITPDNLKKYLGKP  586 (775)
T ss_pred             HHHHHHHHHHHHHHhccCcccCCcccccCCHHHHHHhcCcc
Confidence            555543221       11        267777877777654

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.

>KOG0738|consensus

Probab=99.55  E-value=7.3e-14  Score=132.90  Aligned_cols=170  Identities=23%  Similarity=0.278  Sum_probs=109.8

Q ss_pred             CcccccccHHHHHHHHHHH----------hcCCCC--eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC-
Q psy12150         43 TIDDVIEQQEVVSVLKKCL----------SGADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG-  109 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l----------~~~~~~--~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~-  109 (456)
                      .|+||.|..++++-|++++          ++.+-|  .+|++||||||||.+|++++.+.+.     .|+.++.+...+ 
T Consensus       210 kW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc~t-----TFFNVSsstltSK  284 (491)
T KOG0738|consen  210 KWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGT-----TFFNVSSSTLTSK  284 (491)
T ss_pred             ChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhhcC-----eEEEechhhhhhh
Confidence            6889999999988888775          344433  3999999999999999999999753     455665554221 


Q ss_pred             ----hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH------------HHHHHHHHHHhc---c--Ccc
Q psy12150        110 ----IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA------------AQAALRRTMEKE---T--KST  168 (456)
Q Consensus       110 ----~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~------------~~~~Ll~~le~~---~--~~~  168 (456)
                          .+.+...+.+.+....        |+    +|||||+|.|...            .-..|+-.|+..   .  ..+
T Consensus       285 wRGeSEKlvRlLFemARfyA--------PS----tIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~  352 (491)
T KOG0738|consen  285 WRGESEKLVRLLFEMARFYA--------PS----TIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKV  352 (491)
T ss_pred             hccchHHHHHHHHHHHHHhC--------Cc----eeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhcccccccccee
Confidence                1223333334333322        22    9999999999642            233455444321   1  223


Q ss_pred             eEEE-EecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q psy12150        169 RFCL-ICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG  230 (456)
Q Consensus       169 ~lIl-~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g  230 (456)
                      ++|+ ++|-++.+..++++|+. +|.++-|+.+.....|+..+. .-...++-.++.|++.+.|
T Consensus       353 VmVLAATN~PWdiDEAlrRRlEKRIyIPLP~~~~R~~Li~~~l~-~~~~~~~~~~~~lae~~eG  415 (491)
T KOG0738|consen  353 VMVLAATNFPWDIDEALRRRLEKRIYIPLPDAEARSALIKILLR-SVELDDPVNLEDLAERSEG  415 (491)
T ss_pred             EEEEeccCCCcchHHHHHHHHhhheeeeCCCHHHHHHHHHHhhc-cccCCCCccHHHHHHHhcC
Confidence            5554 45779999999999998 666666666666665554443 3333455556777777655

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

Probab=99.55  E-value=1e-12  Score=125.67  Aligned_cols=219  Identities=17%  Similarity=0.134  Sum_probs=136.2

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChH
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ  111 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~  111 (456)
                      ..|+...-.|..|-.=.++..++..+...+..+ .+.++|+||+|+|||++++.+++.+.....  ....+.... ....
T Consensus        10 ~~pF~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~--~~~~~~~~~-~~~~   85 (269)
T TIGR03015        10 TKPFQLLPDPDFFYPSKGHKRAMAYLEYGLSQR-EGFILITGEVGAGKTTLIRNLLKRLDQERV--VAAKLVNTR-VDAE   85 (269)
T ss_pred             CCCCCCCCCHHHhCCCHHHHHHHHHHHHHHhcC-CCEEEEEcCCCCCHHHHHHHHHHhcCCCCe--EEeeeeCCC-CCHH
Confidence            456665555543322233455556666555533 234999999999999999999998753221  111111111 1111


Q ss_pred             HHHH--------------------HHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc---cCcc
Q psy12150        112 VIRD--------------------KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE---TKST  168 (456)
Q Consensus       112 ~i~~--------------------~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~---~~~~  168 (456)
                      .+..                    .+..+......    .    ..+.+++|||++.+.....+.|....+-.   ...+
T Consensus        86 ~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~~----~----~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~  157 (269)
T TIGR03015        86 DLLRMVAADFGLETEGRDKAALLRELEDFLIEQFA----A----GKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLL  157 (269)
T ss_pred             HHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHh----C----CCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeE
Confidence            1111                    11111111000    0    13459999999999988777665443321   1223


Q ss_pred             eEEEEecCc--cc----ccccccCCc-eEEEecCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHHHH
Q psy12150        169 RFCLICNYV--SC----IIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQES----VMCDFKALETLVETSGGDMRRAIT  237 (456)
Q Consensus       169 ~lIl~~~~~--~k----l~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~~~----~~i~~~~l~~L~~~s~gdlr~~~~  237 (456)
                      .+++++...  ..    ....+.+|. ..+++++++.+++.+++...+...|    ..+++++++.|++.++|++|.+..
T Consensus       158 ~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~  237 (269)
T TIGR03015       158 QIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINI  237 (269)
T ss_pred             EEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHH
Confidence            345555421  11    123466664 4889999999999999999988655    368999999999999999999888


Q ss_pred             HHHHHHHhh---CCCCCCHHHHHHHhCC
Q psy12150        238 CLQSCARLK---GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       238 ~L~~~~~~~---~~~~It~~~v~~~~~~  262 (456)
                      .+..+...+   +.+.|+.++|..++..
T Consensus       238 l~~~~~~~a~~~~~~~i~~~~v~~~~~~  265 (269)
T TIGR03015       238 LCDRLLLSAFLEEKREIGGEEVREVIAE  265 (269)
T ss_pred             HHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence            877765543   5678999999887754

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.54  E-value=1.5e-13  Score=148.87  Aligned_cols=174  Identities=20%  Similarity=0.232  Sum_probs=119.3

Q ss_pred             CCcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      .+|+++.|.+.+++.|.+.+.            +...+. +|||||||||||++++++++++..     +++.+++++..
T Consensus       450 ~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~-----~fi~v~~~~l~  524 (733)
T TIGR01243       450 VRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGA-----NFIAVRGPEIL  524 (733)
T ss_pred             cchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEehHHHh
Confidence            479999999999998888764            122333 999999999999999999998753     56666655421


Q ss_pred             --ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH------------HHHHHHHHHHh--ccCcceEEE
Q psy12150        109 --GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA------------AQAALRRTMEK--ETKSTRFCL  172 (456)
Q Consensus       109 --~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~------------~~~~Ll~~le~--~~~~~~lIl  172 (456)
                        ..+.....+......+...         ...+|||||+|.+.+.            ..+.|+..|+.  ....+++|.
T Consensus       525 ~~~vGese~~i~~~f~~A~~~---------~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~  595 (733)
T TIGR01243       525 SKWVGESEKAIREIFRKARQA---------APAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIA  595 (733)
T ss_pred             hcccCcHHHHHHHHHHHHHhc---------CCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEE
Confidence              1112222333333222111         2239999999988431            23445555653  345677888


Q ss_pred             EecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCC
Q psy12150        173 ICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCD-FKALETLVETSGGD  231 (456)
Q Consensus       173 ~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~-~~~l~~L~~~s~gd  231 (456)
                      ++|.++.+.+++.+  |+. .+.|++|+.++..++++...++  ..++ +..++.|++.+.|.
T Consensus       596 aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~--~~~~~~~~l~~la~~t~g~  656 (733)
T TIGR01243       596 ATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRS--MPLAEDVDLEELAEMTEGY  656 (733)
T ss_pred             eCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcC--CCCCccCCHHHHHHHcCCC
Confidence            88999999999885  775 8999999999999999876654  3333 33578888887663

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.

>KOG0727|consensus

Probab=99.52  E-value=7.1e-13  Score=119.37  Aligned_cols=201  Identities=18%  Similarity=0.268  Sum_probs=127.9

Q ss_pred             CcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC--
Q psy12150         43 TIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD--  107 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~--  107 (456)
                      ++.++-|.+-.++++++.++            +-.+|. +|+|||||||||.+++++++....     .++.++++..  
T Consensus       153 sy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a-----~firvvgsefvq  227 (408)
T KOG0727|consen  153 SYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTA-----AFIRVVGSEFVQ  227 (408)
T ss_pred             cccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccch-----heeeeccHHHHH
Confidence            67888888888888887763            223333 999999999999999999987543     4666666541  


Q ss_pred             ----cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHh-----ccCc
Q psy12150        108 ----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK-----ETKS  167 (456)
Q Consensus       108 ----~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~-----~~~~  167 (456)
                          .+..-+++.++-. ..        ..|+    +|||||+|.+..           +.|..|++.+..     ...+
T Consensus       228 kylgegprmvrdvfrla-ke--------naps----iifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~n  294 (408)
T KOG0727|consen  228 KYLGEGPRMVRDVFRLA-KE--------NAPS----IIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTN  294 (408)
T ss_pred             HHhccCcHHHHHHHHHH-hc--------cCCc----EEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccc
Confidence                2222233322211 11        1222    999999998853           245566666653     3456


Q ss_pred             ceEEEEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH---HcCCCHHHHHHHHHH
Q psy12150        168 TRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVE---TSGGDMRRAITCLQS  241 (456)
Q Consensus       168 ~~lIl~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~---~s~gdlr~~~~~L~~  241 (456)
                      +.+|+++|....+.+++.+.+.   .++|+-++..+-+-....+..+.+..-+-+.-+.+++   .++.|+..+.++.-.
T Consensus       295 vkvimatnradtldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls~~vdle~~v~rpdkis~adi~aicqeagm  374 (408)
T KOG0727|consen  295 VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVDLEDLVARPDKISGADINAICQEAGM  374 (408)
T ss_pred             eEEEEecCcccccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCCcccCHHHHhcCccccchhhHHHHHHHHhH
Confidence            7899999999999999987765   7999988888888888888877655423222233332   234444444333322


Q ss_pred             HHHhhCCCCCCHHHHHHHhC
Q psy12150        242 CARLKGGEGIVNEDVLEVTG  261 (456)
Q Consensus       242 ~~~~~~~~~It~~~v~~~~~  261 (456)
                      .+-....-.|...|+++...
T Consensus       375 ~avr~nryvvl~kd~e~ay~  394 (408)
T KOG0727|consen  375 LAVRENRYVVLQKDFEKAYK  394 (408)
T ss_pred             HHHHhcceeeeHHHHHHHHH
Confidence            22222344566667665543

>KOG0734|consensus

Probab=99.52  E-value=3.1e-13  Score=133.12  Aligned_cols=209  Identities=19%  Similarity=0.200  Sum_probs=138.1

Q ss_pred             hccCCCCcccccccHHHHHHHHHHHh-----------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC
Q psy12150         37 EKYRPKTIDDVIEQQEVVSVLKKCLS-----------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        37 eky~P~~~~~ivg~~~~~~~l~~~l~-----------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      ++-.-.+|+|+.|.++.+.+|.+.++           +|+.|. +||+||||||||.+|++++.+..     .++++..+
T Consensus       296 ~~~~nv~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~-----VPFF~~sG  370 (752)
T KOG0734|consen  296 EQMKNVTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAG-----VPFFYASG  370 (752)
T ss_pred             hhhcccccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccC-----CCeEeccc
Confidence            34445679999999999887776653           566766 99999999999999999998753     34555555


Q ss_pred             CCCcC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH-----------HHHHHHHHHHhc--cCcce
Q psy12150        105 SDDRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTMEKE--TKSTR  169 (456)
Q Consensus       105 ~~~~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~-----------~~~~Ll~~le~~--~~~~~  169 (456)
                      +....  ++.=...++++...+.     ..-||    ||||||+|.+...           ..+.|+--|+..  ...++
T Consensus       371 SEFdEm~VGvGArRVRdLF~aAk-----~~APc----IIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiI  441 (752)
T KOG0734|consen  371 SEFDEMFVGVGARRVRDLFAAAK-----ARAPC----IIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGII  441 (752)
T ss_pred             cchhhhhhcccHHHHHHHHHHHH-----hcCCe----EEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCceE
Confidence            54211  1111233344433321     12455    9999999988532           234444444432  34577


Q ss_pred             EEEEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCH-HHHHHHHHHHHH
Q psy12150        170 FCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCD-FKALETLVETSGGDM-RRAITCLQSCAR  244 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~-~~~l~~L~~~s~gdl-r~~~~~L~~~~~  244 (456)
                      +|.++|.+..++++|.+.+.   .+..+.|+..-..++|+.++.+  +.++ +-....|++-+.|.- -.+-|.+..++.
T Consensus       442 vigATNfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~k--i~~~~~VD~~iiARGT~GFsGAdLaNlVNqAAl  519 (752)
T KOG0734|consen  442 VIGATNFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSK--IPLDEDVDPKIIARGTPGFSGADLANLVNQAAL  519 (752)
T ss_pred             EEeccCChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHHhc--CCcccCCCHhHhccCCCCCchHHHHHHHHHHHH
Confidence            77788889999999987654   7888888888888899888864  3333 223556677776633 334455555555


Q ss_pred             hh---CCCCCCHHHHHHHhC
Q psy12150        245 LK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       245 ~~---~~~~It~~~v~~~~~  261 (456)
                      ++   +...+|..+++-.-.
T Consensus       520 kAa~dga~~VtM~~LE~akD  539 (752)
T KOG0734|consen  520 KAAVDGAEMVTMKHLEFAKD  539 (752)
T ss_pred             HHHhcCcccccHHHHhhhhh
Confidence            55   567889888875543

>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=99.52  E-value=3.7e-13  Score=128.98  Aligned_cols=102  Identities=25%  Similarity=0.277  Sum_probs=78.6

Q ss_pred             EEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC------------cccccccccCCceEEEecCCCHHHHHHHHHH
Q psy12150        140 IVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY------------VSCIIQPLTSRCSKFRFKPLAENTMLTRLQY  207 (456)
Q Consensus       140 iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~------------~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~  207 (456)
                      |+||||+|.|.-+++..|.+.+|..- .+++|+++|+            ++-++..|.+|+..+...|++.+++.+++.-
T Consensus       281 VLFIDEvHmLDiEcFsfLnralEs~~-sPiiIlATNRg~~~irGt~~~sphGiP~DlLDRllII~t~py~~~ei~~Il~i  359 (398)
T PF06068_consen  281 VLFIDEVHMLDIECFSFLNRALESEL-SPIIILATNRGITKIRGTDIISPHGIPLDLLDRLLIIRTKPYSEEEIKQILKI  359 (398)
T ss_dssp             EEEEESGGGSBHHHHHHHHHHHTSTT---EEEEEES-SEEE-BTTS-EEETT--HHHHTTEEEEEE----HHHHHHHHHH
T ss_pred             eEEecchhhccHHHHHHHHHHhcCCC-CcEEEEecCceeeeccCccCcCCCCCCcchHhhcEEEECCCCCHHHHHHHHHh
Confidence            99999999999999999999998653 4678888884            2345667899999999999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHH
Q psy12150        208 ICEQESVMCDFKALETLVETS-GGDMRRAITCLQSC  242 (456)
Q Consensus       208 ~~~~~~~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~  242 (456)
                      +|+.+++.+++++++.|.... ..++|.+++.|.-+
T Consensus       360 R~~~E~v~i~~~al~~L~~ig~~~SLRYAiqLi~~a  395 (398)
T PF06068_consen  360 RAKEEDVEISEDALDLLTKIGVETSLRYAIQLITPA  395 (398)
T ss_dssp             HHHHCT--B-HHHHHHHHHHHHHS-HHHHHHCHHHH
T ss_pred             hhhhhcCcCCHHHHHHHHHHhhhccHHHHHHhhhhh
Confidence            999999999999999999865 57899999988654

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.

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.52  E-value=3.6e-13  Score=141.09  Aligned_cols=220  Identities=17%  Similarity=0.185  Sum_probs=148.7

Q ss_pred             chhccCCCCcccccccHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHH
Q psy12150         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV  112 (456)
Q Consensus        35 w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~  112 (456)
                      =.++++..+++.++|+...++.+.+.++.-.  ..+++|+|++||||+++|++++.....  ...+++.+||..... ..
T Consensus       186 ~~~~~~~~~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~r--~~~pfv~i~c~~~~~-~~  262 (534)
T TIGR01817       186 EIARRRSGKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPR--AKRPFVKVNCAALSE-TL  262 (534)
T ss_pred             cccccccCccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCCC--CCCCeEEeecCCCCH-HH
Confidence            3445666789999999998888877775432  234999999999999999999987543  233789999987422 22


Q ss_pred             HHHHHHHHHHhhccCC--CCCCCC-CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-
Q psy12150        113 IRDKVKTFAQQTASGF--NQDGKP-CPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-  177 (456)
Q Consensus       113 i~~~l~~~~~~~~~~~--~~~~~~-~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-  177 (456)
                      +...+.......+.+.  ...|.. .++..+|||||++.|+...|..|++++++..           ..+.+|++++.. 
T Consensus       263 ~~~~lfg~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~~l  342 (534)
T TIGR01817       263 LESELFGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDL  342 (534)
T ss_pred             HHHHHcCCCCCccCCCCcCCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCCCH
Confidence            2221110000000000  000000 1344599999999999999999999997642           135677777642 


Q ss_pred             ------ccccccccCCce--EEEecCCC--HHHHHHHHHHHHH----HcC--CCCCHHHHHHHHHH-cCCCHHHHHHHHH
Q psy12150        178 ------SCIIQPLTSRCS--KFRFKPLA--ENTMLTRLQYICE----QES--VMCDFKALETLVET-SGGDMRRAITCLQ  240 (456)
Q Consensus       178 ------~kl~~~l~~r~~--~i~f~~~~--~~el~~~l~~~~~----~~~--~~i~~~~l~~L~~~-s~gdlr~~~~~L~  240 (456)
                            ..+.+.|..|+.  .+.++|+.  .+++..++...+.    +.+  ..+++++++.|..+ ++||+|++.+.++
T Consensus       343 ~~~~~~~~f~~~L~~rl~~~~i~lPpLreR~eDi~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~~~WPGNvrEL~~v~~  422 (534)
T TIGR01817       343 EEAVAKGEFRADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRPLTITPSAIRVLMSCKWPGNVRELENCLE  422 (534)
T ss_pred             HHHHHcCCCCHHHHHHhcCCeeeCCCcccccccHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHhCCCCChHHHHHHHHH
Confidence                  123344555554  57778886  4666655555443    222  56899999999988 5999999999999


Q ss_pred             HHHHhhCCCCCCHHHHH
Q psy12150        241 SCARLKGGEGIVNEDVL  257 (456)
Q Consensus       241 ~~~~~~~~~~It~~~v~  257 (456)
                      .++..+.+..|+.+++.
T Consensus       423 ~a~~~~~~~~I~~~~l~  439 (534)
T TIGR01817       423 RTATLSRSGTITRSDFS  439 (534)
T ss_pred             HHHHhCCCCcccHHHCc
Confidence            99887777789998875

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.51  E-value=3.2e-13  Score=137.58  Aligned_cols=181  Identities=19%  Similarity=0.232  Sum_probs=115.9

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhc------------CCCC-eEEEECCCCCcHHHHHHHHHHHhcCCc-----
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG------------ADLP-HFLFYGPPGTGKTSTMIAACHQLFGDM-----   94 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~------------~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~-----   94 (456)
                      ....+++.+.+|++|.|.+..++.++..+.-            -.++ ++|||||||||||++++++++.+....     
T Consensus       170 ~l~~~~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~  249 (512)
T TIGR03689       170 DLVLEEVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETG  249 (512)
T ss_pred             cceeecCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccC
Confidence            3445667678999999999999988887631            1223 399999999999999999999986431     


Q ss_pred             cccceEEeeCCCCc--ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH------------HHHHHHHH
Q psy12150         95 YRERILELNASDDR--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA------------AQAALRRT  160 (456)
Q Consensus        95 ~~~~~~e~n~~~~~--~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~------------~~~~Ll~~  160 (456)
                      ....++.+..++..  ........+.......... ...+.|+    ||||||+|.+...            ....|+..
T Consensus       250 ~~~~fl~v~~~eLl~kyvGete~~ir~iF~~Ar~~-a~~g~p~----IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~  324 (512)
T TIGR03689       250 DKSYFLNIKGPELLNKYVGETERQIRLIFQRAREK-ASDGRPV----IVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSE  324 (512)
T ss_pred             CceeEEeccchhhcccccchHHHHHHHHHHHHHHH-hhcCCCc----eEEEehhhhhhcccCCCccchHHHHHHHHHHHH
Confidence            11223333322210  1111111222211111100 0112344    9999999988532            12455666


Q ss_pred             HHhcc--CcceEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHH
Q psy12150        161 MEKET--KSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFK  219 (456)
Q Consensus       161 le~~~--~~~~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~  219 (456)
                      |+...  ..+++|.++|.+..+.+++.+  |+. .|+|++|+.++..++++.++.. ...++++
T Consensus       325 LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~-~l~l~~~  387 (512)
T TIGR03689       325 LDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD-SLPLDAD  387 (512)
T ss_pred             hcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc-cCCchHH
Confidence            65432  467788889999999999987  654 6999999999999999988764 3445333

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.

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.51  E-value=1.1e-12  Score=131.10  Aligned_cols=213  Identities=16%  Similarity=0.156  Sum_probs=148.3

Q ss_pred             CCcccccccHHHHHHHHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHH
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGADL--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~~~--~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~  119 (456)
                      ....+++|+...++++.+.+.+-..  .++||+|++||||..+|++|++.-..  ...+++.+||.. ...+.+...+..
T Consensus       138 ~~~~~liG~S~am~~l~~~i~kvA~s~a~VLI~GESGtGKElvAr~IH~~S~R--~~~PFVavNcaA-ip~~l~ESELFG  214 (464)
T COG2204         138 SLGGELVGESPAMQQLRRLIAKVAPSDASVLITGESGTGKELVARAIHQASPR--AKGPFIAVNCAA-IPENLLESELFG  214 (464)
T ss_pred             cccCCceecCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHhhCcc--cCCCceeeeccc-CCHHHHHHHhhc
Confidence            3567899999999998888764322  34999999999999999999997433  345899999986 333334433333


Q ss_pred             HHHhhccCCCCCCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------
Q psy12150        120 FAQQTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------  177 (456)
Q Consensus       120 ~~~~~~~~~~~~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------  177 (456)
                      ....++.+-. ..+.+    ++...+|+||+..|+-+.|..|++.|++..           .++++|.+|+..       
T Consensus       215 hekGAFTGA~-~~r~G~fE~A~GGTLfLDEI~~mpl~~Q~kLLRvLqe~~~~rvG~~~~i~vdvRiIaaT~~dL~~~v~~  293 (464)
T COG2204         215 HEKGAFTGAI-TRRIGRFEQANGGTLFLDEIGEMPLELQVKLLRVLQEREFERVGGNKPIKVDVRIIAATNRDLEEEVAA  293 (464)
T ss_pred             ccccCcCCcc-cccCcceeEcCCceEEeeccccCCHHHHHHHHHHHHcCeeEecCCCcccceeeEEEeecCcCHHHHHHc
Confidence            3333222211 11111    466699999999999999999999998632           346788887742       


Q ss_pred             ccccccccCCceEEEe--cCCC--HHHH----HHHHHHHHHHcC---CCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh
Q psy12150        178 SCIIQPLTSRCSKFRF--KPLA--ENTM----LTRLQYICEQES---VMCDFKALETLVET-SGGDMRRAITCLQSCARL  245 (456)
Q Consensus       178 ~kl~~~l~~r~~~i~f--~~~~--~~el----~~~l~~~~~~~~---~~i~~~~l~~L~~~-s~gdlr~~~~~L~~~~~~  245 (456)
                      .++-+.|.-|..++.+  +|+.  .+++    ..++++.+++.|   ..++++++..|..+ ++||+|++.|.++.++..
T Consensus       294 G~FReDLyyRLnV~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNVREL~N~ver~~il  373 (464)
T COG2204         294 GRFREDLYYRLNVVPLRLPPLRERKEDIPLLAEHFLKRFAAELGRPPKGFSPEALAALLAYDWPGNVRELENVVERAVIL  373 (464)
T ss_pred             CCcHHHHHhhhccceecCCcccccchhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCChHHHHHHHHHHHHHhc
Confidence            2344455566554444  4443  2333    344555565554   46899999998876 599999999999999988


Q ss_pred             hCCCCCCHHHHHH
Q psy12150        246 KGGEGIVNEDVLE  258 (456)
Q Consensus       246 ~~~~~It~~~v~~  258 (456)
                      +.+..|+.+++..
T Consensus       374 ~~~~~i~~~~l~~  386 (464)
T COG2204         374 SEGPEIEVEDLPL  386 (464)
T ss_pred             CCccccchhhccc
Confidence            8888899888653

>KOG0731|consensus

Probab=99.50  E-value=9.6e-13  Score=137.11  Aligned_cols=209  Identities=19%  Similarity=0.209  Sum_probs=143.7

Q ss_pred             cCCCCcccccccHHHHHHHHHHHh-----------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         39 YRPKTIDDVIEQQEVVSVLKKCLS-----------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        39 y~P~~~~~ivg~~~~~~~l~~~l~-----------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      -.+-+|.|+.|.++++.+|.++++           +.++|. +||+||||||||.+|+++|.+.     ..+++.+++++
T Consensus       305 ~t~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA-----gVPF~svSGSE  379 (774)
T KOG0731|consen  305 NTGVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-----GVPFFSVSGSE  379 (774)
T ss_pred             CCCCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc-----CCceeeechHH
Confidence            345689999999999988877763           344555 9999999999999999999884     34677777776


Q ss_pred             CcCh--HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH------------HHHHHHHHH---Hh--ccCc
Q psy12150        107 DRGI--QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA------------AQAALRRTM---EK--ETKS  167 (456)
Q Consensus       107 ~~~~--~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~------------~~~~Ll~~l---e~--~~~~  167 (456)
                      ....  ..-...++++...+..     ..||    +|+|||+|.+...            ....|.+++   +.  ....
T Consensus       380 FvE~~~g~~asrvr~lf~~ar~-----~aP~----iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~  450 (774)
T KOG0731|consen  380 FVEMFVGVGASRVRDLFPLARK-----NAPS----IIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKG  450 (774)
T ss_pred             HHHHhcccchHHHHHHHHHhhc-----cCCe----EEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCc
Confidence            3211  1112233444333221     2344    9999999987432            223444444   32  3345


Q ss_pred             ceEEEEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH-HHHH
Q psy12150        168 TRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL-QSCA  243 (456)
Q Consensus       168 ~~lIl~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L-~~~~  243 (456)
                      ++++.+||.+.-+.+++.+-+.   .+....|+.....++++.+++.-....++..+..++..++|....-+..+ ..++
T Consensus       451 vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~neaa  530 (774)
T KOG0731|consen  451 VIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCNEAA  530 (774)
T ss_pred             EEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhhHHH
Confidence            7777788888888999887665   78999999999999999998876665566666669999988555433333 3333


Q ss_pred             Hhh---CCCCCCHHHHHHHhC
Q psy12150        244 RLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       244 ~~~---~~~~It~~~v~~~~~  261 (456)
                      ..+   +...|+..++..++.
T Consensus       531 ~~a~r~~~~~i~~~~~~~a~~  551 (774)
T KOG0731|consen  531 LLAARKGLREIGTKDLEYAIE  551 (774)
T ss_pred             HHHHHhccCccchhhHHHHHH
Confidence            322   577899988887776

>KOG0730|consensus

Probab=99.49  E-value=8e-13  Score=133.87  Aligned_cols=257  Identities=18%  Similarity=0.211  Sum_probs=180.0

Q ss_pred             CCCCcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         40 RPKTIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        40 ~P~~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      .|-+ .++.|....+..++..+.            +-++|. +|+|||||+|||.++++++++...     .++.+|+..
T Consensus       180 ~~~~-~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a-----~~~~i~~pe  253 (693)
T KOG0730|consen  180 PEVG-DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGA-----FLFLINGPE  253 (693)
T ss_pred             cccc-cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhCc-----eeEecccHH
Confidence            3444 577777777777666652            122333 999999999999999999998643     566666653


Q ss_pred             C------cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH----------HHHHHHHHHHhcc--Ccc
Q psy12150        107 D------RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA----------AQAALRRTMEKET--KST  168 (456)
Q Consensus       107 ~------~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~----------~~~~Ll~~le~~~--~~~  168 (456)
                      .      .....++..+........        |    .+++|||+|.+.+.          ....|+.+++...  ..+
T Consensus       254 li~k~~gEte~~LR~~f~~a~k~~~--------p----sii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~~~~v  321 (693)
T KOG0730|consen  254 LISKFPGETESNLRKAFAEALKFQV--------P----SIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKPDAKV  321 (693)
T ss_pred             HHHhcccchHHHHHHHHHHHhccCC--------C----eeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcCcCcE
Confidence            1      112223333333322211        2    39999999999751          2345666666544  567


Q ss_pred             eEEEEecCcccccccccC-Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy12150        169 RFCLICNYVSCIIQPLTS-RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (456)
Q Consensus       169 ~lIl~~~~~~kl~~~l~~-r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~  246 (456)
                      +++.++|.+..+.+++++ |+. .+.+.-|+..+..++++..++..+.. ++..+..++..++|.+..-+..+-+.+...
T Consensus       322 ivl~atnrp~sld~alRRgRfd~ev~IgiP~~~~RldIl~~l~k~~~~~-~~~~l~~iA~~thGyvGaDL~~l~~ea~~~  400 (693)
T KOG0730|consen  322 IVLAATNRPDSLDPALRRGRFDREVEIGIPGSDGRLDILRVLTKKMNLL-SDVDLEDIAVSTHGYVGADLAALCREASLQ  400 (693)
T ss_pred             EEEEecCCccccChhhhcCCCcceeeecCCCchhHHHHHHHHHHhcCCc-chhhHHHHHHHccchhHHHHHHHHHHHHHH
Confidence            777788889999999986 554 79999999999999999999887765 678899999999997755444443333322


Q ss_pred             CCCCCCHHHHHHHhCCCCHHHHHHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy12150        247 GGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLV  326 (456)
Q Consensus       247 ~~~~It~~~v~~~~~~~~~~~i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~  326 (456)
                      ..+. +.+++..+...+.+..+.+.+-.                                               +..+.
T Consensus       401 ~~r~-~~~~~~~A~~~i~psa~Re~~ve-----------------------------------------------~p~v~  432 (693)
T KOG0730|consen  401 ATRR-TLEIFQEALMGIRPSALREILVE-----------------------------------------------MPNVS  432 (693)
T ss_pred             Hhhh-hHHHHHHHHhcCCchhhhheecc-----------------------------------------------CCCCC
Confidence            1112 66777777777766655555433                                               45566


Q ss_pred             hcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCch
Q psy12150        327 ETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNP  367 (456)
Q Consensus       327 ~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~  367 (456)
                      |...|.+..+...||++.    .|++.+.+.|...|.-||+
T Consensus       433 W~dIGGlE~lK~elq~~V----~~p~~~pe~F~r~Gi~ppk  469 (693)
T KOG0730|consen  433 WDDIGGLEELKRELQQAV----EWPLKHPEKFARFGISPPK  469 (693)
T ss_pred             hhhccCHHHHHHHHHHHH----hhhhhchHHHHHhcCCCCc
Confidence            888899999999999998    5889999999999976654

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.49  E-value=7.6e-13  Score=142.63  Aligned_cols=225  Identities=20%  Similarity=0.234  Sum_probs=146.3

Q ss_pred             CCCCcchhccCCCCcc----------cccccHHHHHHHHHHHhc------CCCCeEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         30 NKPVPWVEKYRPKTID----------DVIEQQEVVSVLKKCLSG------ADLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        30 ~~~~~w~eky~P~~~~----------~ivg~~~~~~~l~~~l~~------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      -.+.||.. |.+.+++          +..|.+.+++++.+++..      ...+.++|+||||+|||++++.+++.+.. 
T Consensus       298 ~~~~pw~~-~~~~~~~~~~~~~~l~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~-  375 (784)
T PRK10787        298 MVQVPWNA-RSKVKKDLRQAQEILDTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGR-  375 (784)
T ss_pred             HHhCCCCC-CCcccccHHHHHHHhhhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCC-
Confidence            45688954 3444332          478999999999877752      22334999999999999999999998754 


Q ss_pred             ccccceEEeeCCCCcChHHHHHHHHHHHHhhcc----CCCCCCCCCCCcEEEEEcCCCCccHHH----HHHHHHHHHhc-
Q psy12150         94 MYRERILELNASDDRGIQVIRDKVKTFAQQTAS----GFNQDGKPCPPFKIVILDEADSMTHAA----QAALRRTMEKE-  164 (456)
Q Consensus        94 ~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~----~~~~~~~~~~~~~iviIDE~d~l~~~~----~~~Ll~~le~~-  164 (456)
                          +++.++.+.......+......+......    .....+   ....|+++||+|.+.+..    +++|++.++.. 
T Consensus       376 ----~~~~i~~~~~~d~~~i~g~~~~~~g~~~G~~~~~l~~~~---~~~~villDEidk~~~~~~g~~~~aLlevld~~~  448 (784)
T PRK10787        376 ----KYVRMALGGVRDEAEIRGHRRTYIGSMPGKLIQKMAKVG---VKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQ  448 (784)
T ss_pred             ----CEEEEEcCCCCCHHHhccchhccCCCCCcHHHHHHHhcC---CCCCEEEEEChhhcccccCCCHHHHHHHHhcccc
Confidence                35555554433333332211111000000    000000   122399999999998764    57888888641 


Q ss_pred             --------------cCcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHH-----H-----cCCCCCHHH
Q psy12150        165 --------------TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE-----Q-----ESVMCDFKA  220 (456)
Q Consensus       165 --------------~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~-----~-----~~~~i~~~~  220 (456)
                                    -.++.||+++|.. .+.++|++|+..+.|.+++.++...+++..+.     +     ..+.+++++
T Consensus       449 ~~~~~d~~~~~~~dls~v~~i~TaN~~-~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~a  527 (784)
T PRK10787        449 NVAFSDHYLEVDYDLSDVMFVATSNSM-NIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSA  527 (784)
T ss_pred             EEEEecccccccccCCceEEEEcCCCC-CCCHHHhcceeeeecCCCCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHHH
Confidence                          1456777777765 59999999999999999999999998877763     1     125689999


Q ss_pred             HHHHHHHcC--CCHHHHHHHHHHHHHhh------CC----CCCCHHHHHHHhCCCC
Q psy12150        221 LETLVETSG--GDMRRAITCLQSCARLK------GG----EGIVNEDVLEVTGVIP  264 (456)
Q Consensus       221 l~~L~~~s~--gdlr~~~~~L~~~~~~~------~~----~~It~~~v~~~~~~~~  264 (456)
                      ++.|++.+.  .-.|.+.+.+++.+...      ++    -.|+.+++.+.++...
T Consensus       528 i~~ii~~yt~e~GaR~LeR~I~~i~r~~l~~~~~~~~~~~v~v~~~~~~~~lg~~~  583 (784)
T PRK10787        528 IIGIIRYYTREAGVRSLEREISKLCRKAVKQLLLDKSLKHIEINGDNLHDYLGVQR  583 (784)
T ss_pred             HHHHHHhCCcccCCcHHHHHHHHHHHHHHHHHHhcCCCceeeecHHHHHHHhCCCc
Confidence            999997542  23555555555443321      21    2588888888888653

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

Probab=99.49  E-value=5.2e-13  Score=128.29  Aligned_cols=151  Identities=17%  Similarity=0.243  Sum_probs=106.6

Q ss_pred             CCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc------ChHHHHHHHHHHHHhhccCCCCCCCCCCC
Q psy12150         65 DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPP  137 (456)
Q Consensus        65 ~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~------~~~~i~~~l~~~~~~~~~~~~~~~~~~~~  137 (456)
                      ++|. ++||||||||||.++++++++++.     .++.+++.+..      +...+++....+....    ...+.||  
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~-----~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a----~~~~aPc--  214 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGI-----EPIVMSAGELESENAGEPGKLIRQRYREAADII----KKKGKMS--  214 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCC-----CeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHh----hccCCCe--
Confidence            3444 999999999999999999999855     45666655421      2233444444333221    1234566  


Q ss_pred             cEEEEEcCCCCccHH---------H---HHHHHHHHHh--------------ccCcceEEEEecCcccccccccC--Cce
Q psy12150        138 FKIVILDEADSMTHA---------A---QAALRRTMEK--------------ETKSTRFCLICNYVSCIIQPLTS--RCS  189 (456)
Q Consensus       138 ~~iviIDE~d~l~~~---------~---~~~Ll~~le~--------------~~~~~~lIl~~~~~~kl~~~l~~--r~~  189 (456)
                        ||||||+|.+.+.         .   ...|+..+++              ....+.+|.++|+++.++++|.+  |+.
T Consensus       215 --VLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRfD  292 (413)
T PLN00020        215 --CLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRME  292 (413)
T ss_pred             --EEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCCCCC
Confidence              9999999987542         1   1345555543              23457788889999999999988  665


Q ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Q psy12150        190 KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGD  231 (456)
Q Consensus       190 ~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gd  231 (456)
                      .+ +..|+.++..++++.+++..+  ++...+..|+...+|.
T Consensus       293 k~-i~lPd~e~R~eIL~~~~r~~~--l~~~dv~~Lv~~f~gq  331 (413)
T PLN00020        293 KF-YWAPTREDRIGVVHGIFRDDG--VSREDVVKLVDTFPGQ  331 (413)
T ss_pred             ce-eCCCCHHHHHHHHHHHhccCC--CCHHHHHHHHHcCCCC
Confidence            53 458999999999999988764  5688899999998875

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=99.48  E-value=1.5e-12  Score=129.91  Aligned_cols=216  Identities=18%  Similarity=0.190  Sum_probs=150.9

Q ss_pred             cCCCCcccccccHHHHHHHHHHHhcCCC-C-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH
Q psy12150         39 YRPKTIDDVIEQQEVVSVLKKCLSGADL-P-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK  116 (456)
Q Consensus        39 y~P~~~~~ivg~~~~~~~l~~~l~~~~~-~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~  116 (456)
                      +.+-+|++|+|....+.++.+.++.... + .+|+.|++||||..+|+++++.-..  .+.+|+.+||.. ....-+...
T Consensus       239 ~a~y~f~~Iig~S~~m~~~~~~akr~A~tdstVLi~GESGTGKElfA~~IH~~S~R--~~~PFIaiNCaA-iPe~LlESE  315 (560)
T COG3829         239 KAKYTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGKELFARAIHNLSPR--ANGPFIAINCAA-IPETLLESE  315 (560)
T ss_pred             ccccchhhhccCCHHHHHHHHHHHhhcCCCCcEEEecCCCccHHHHHHHHHhcCcc--cCCCeEEEeccc-CCHHHHHHH
Confidence            3455899999998888777777665432 2 3999999999999999999997433  345899999986 333444455


Q ss_pred             HHHHHHhhccCCCCCCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhc-----------cCcceEEEEecCc-c--
Q psy12150        117 VKTFAQQTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRFCLICNYV-S--  178 (456)
Q Consensus       117 l~~~~~~~~~~~~~~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~-----------~~~~~lIl~~~~~-~--  178 (456)
                      +..+...++.+....|+++    ++...+|+||+..|+..-|..|++.|++.           +..+++|.++|.. .  
T Consensus       316 LFGye~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVRIIAATN~nL~~~  395 (560)
T COG3829         316 LFGYEKGAFTGASKGGKPGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVRIIAATNRNLEKM  395 (560)
T ss_pred             HhCcCCccccccccCCCCcceeeccCCeEEehhhccCCHHHHHHHHHHHhhceEEecCCCCceeeEEEEEeccCcCHHHH
Confidence            5555555555555555554    67779999999999999999999999863           2457788888753 2  


Q ss_pred             ----cccccccCCceE--EEecCCC--HHHHHHHHHHH----HHHcC---CCCCHHHHHHHHHH-cCCCHHHHHHHHHHH
Q psy12150        179 ----CIIQPLTSRCSK--FRFKPLA--ENTMLTRLQYI----CEQES---VMCDFKALETLVET-SGGDMRRAITCLQSC  242 (456)
Q Consensus       179 ----kl~~~l~~r~~~--i~f~~~~--~~el~~~l~~~----~~~~~---~~i~~~~l~~L~~~-s~gdlr~~~~~L~~~  242 (456)
                          .+-..|.-|..+  +.++|+-  ++++.......    .++.+   ..++++++..|.++ ++||+|++-|.++.+
T Consensus       396 i~~G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~~~~v~~ls~~a~~~L~~y~WPGNVRELeNviER~  475 (560)
T COG3829         396 IAEGTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYFLDKFSRRYGRNVKGLSPDALALLLRYDWPGNVRELENVIERA  475 (560)
T ss_pred             HhcCcchhhheeeeceeeecCCCcccCcchHHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHhCCCCchHHHHHHHHHHH
Confidence                223334444443  4445553  24444433333    33333   23889999998875 699999999999999


Q ss_pred             HHhh-CCCCCCHHHHH
Q psy12150        243 ARLK-GGEGIVNEDVL  257 (456)
Q Consensus       243 ~~~~-~~~~It~~~v~  257 (456)
                      ..+. .+..|+.+++.
T Consensus       476 v~~~~~~~~I~~~~lp  491 (560)
T COG3829         476 VNLVESDGLIDADDLP  491 (560)
T ss_pred             HhccCCcceeehhhcc
Confidence            8765 45567777765

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.48  E-value=4.8e-12  Score=120.29  Aligned_cols=199  Identities=15%  Similarity=0.113  Sum_probs=131.9

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHH---------HHHHHH
Q psy12150         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD---------KVKTFA  121 (456)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~---------~l~~~~  121 (456)
                      ...++.+..++..+.  +++|+||||||||++|+++++.++.     +++.+++.......++..         ....+.
T Consensus         8 ~~l~~~~l~~l~~g~--~vLL~G~~GtGKT~lA~~la~~lg~-----~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~   80 (262)
T TIGR02640         8 KRVTSRALRYLKSGY--PVHLRGPAGTGKTTLAMHVARKRDR-----PVMLINGDAELTTSDLVGSYAGYTRKKVHDQFI   80 (262)
T ss_pred             HHHHHHHHHHHhcCC--eEEEEcCCCCCHHHHHHHHHHHhCC-----CEEEEeCCccCCHHHHhhhhcccchhhHHHHHH
Confidence            345566677777653  6899999999999999999997643     456666654333222211         111111


Q ss_pred             Hhh-----ccCCCCCCCC----CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc----------------CcceEEEEecC
Q psy12150        122 QQT-----ASGFNQDGKP----CPPFKIVILDEADSMTHAAQAALRRTMEKET----------------KSTRFCLICNY  176 (456)
Q Consensus       122 ~~~-----~~~~~~~~~~----~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~----------------~~~~lIl~~~~  176 (456)
                      ...     .........+    .....++++||++.+.++.++.|+..|++..                +..++|+++|.
T Consensus        81 ~~~~~~~~~~~~~~~~g~l~~A~~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~  160 (262)
T TIGR02640        81 HNVVKLEDIVRQNWVDNRLTLAVREGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNP  160 (262)
T ss_pred             HHhhhhhcccceeecCchHHHHHHcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCC
Confidence            000     0000000000    0123499999999999999999999997521                24567888875


Q ss_pred             c-----ccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc------C----CCHHHHHHHHHH
Q psy12150        177 V-----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETS------G----GDMRRAITCLQS  241 (456)
Q Consensus       177 ~-----~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s------~----gdlr~~~~~L~~  241 (456)
                      .     ..+.+++..|+..+.+..|+.++..+++...+     .++++.++.+++..      +    -.+|.++...+.
T Consensus       161 ~~~~g~~~l~~aL~~R~~~i~i~~P~~~~e~~Il~~~~-----~~~~~~~~~iv~~~~~~R~~~~~~~~~~r~~i~~~~~  235 (262)
T TIGR02640       161 VEYAGVHETQDALLDRLITIFMDYPDIDTETAILRAKT-----DVAEDSAATIVRLVREFRASGDEITSGLRASLMIAEV  235 (262)
T ss_pred             ccccceecccHHHHhhcEEEECCCCCHHHHHHHHHHhh-----CCCHHHHHHHHHHHHHHHhhCCccCCcHHHHHHHHHH
Confidence            3     34567799999999999999999999988764     35777776665432      1    137888888888


Q ss_pred             HHHhhCCCCCCHHHHHHHhC
Q psy12150        242 CARLKGGEGIVNEDVLEVTG  261 (456)
Q Consensus       242 ~~~~~~~~~It~~~v~~~~~  261 (456)
                      +..++....++.+++.+++.
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~  255 (262)
T TIGR02640       236 ATQQDIPVDVDDEDFVDLCI  255 (262)
T ss_pred             HHHcCCCCCCCcHHHHHHHH
Confidence            87776666788899887764

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).

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

Probab=99.48  E-value=1.8e-12  Score=118.40  Aligned_cols=190  Identities=19%  Similarity=0.248  Sum_probs=132.2

Q ss_pred             hccCCCCcccccccHHHHHHHH----HHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHH
Q psy12150         37 EKYRPKTIDDVIEQQEVVSVLK----KCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV  112 (456)
Q Consensus        37 eky~P~~~~~ivg~~~~~~~l~----~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~  112 (456)
                      ....|-.+++++|-+..++.|.    .++++....|+||+|++|||||++++++..++.....  .++++...+......
T Consensus        19 ~~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~GL--RlIev~k~~L~~l~~   96 (249)
T PF05673_consen   19 KHPDPIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQGL--RLIEVSKEDLGDLPE   96 (249)
T ss_pred             CCCCCCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcCc--eEEEECHHHhccHHH
Confidence            4456778999999887776654    4455555455999999999999999999999877654  788887776555555


Q ss_pred             HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH-HHHHHHHHH----HhccCcceEEEEecCcccccc-----
Q psy12150        113 IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-AQAALRRTM----EKETKSTRFCLICNYVSCIIQ-----  182 (456)
Q Consensus       113 i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~-~~~~Ll~~l----e~~~~~~~lIl~~~~~~kl~~-----  182 (456)
                      +.+.+.   ..+            .+=|||+||..+=..+ ....|...|    +..|.++++..|+|.++-+..     
T Consensus        97 l~~~l~---~~~------------~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E~~~d~  161 (249)
T PF05673_consen   97 LLDLLR---DRP------------YKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVPESFSDR  161 (249)
T ss_pred             HHHHHh---cCC------------CCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccchhhhhc
Confidence            444433   222            1229999997654333 334444444    456788888888876432211     


Q ss_pred             ------------------cccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHH-----HHHHHHcCCCHHHHHHH
Q psy12150        183 ------------------PLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKAL-----ETLVETSGGDMRRAITC  238 (456)
Q Consensus       183 ------------------~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l-----~~L~~~s~gdlr~~~~~  238 (456)
                                        +|..|+. .+.|.+++.++..+++...+++.|+.++++.+     +.-..+.+.+-|.|.+.
T Consensus       162 ~~~~~~eih~~d~~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~~~g~~~~~e~l~~~Al~wa~~rg~RSGRtA~QF  241 (249)
T PF05673_consen  162 EDIQDDEIHPSDTIEEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYAERYGLELDEEELRQEALQWALRRGGRSGRTARQF  241 (249)
T ss_pred             cCCCccccCcchHHHHHHhHHHhCCcEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence                              1234444 89999999999999999999999999996444     33334445678888777


Q ss_pred             HHHHH
Q psy12150        239 LQSCA  243 (456)
Q Consensus       239 L~~~~  243 (456)
                      ++.++
T Consensus       242 ~~~l~  246 (249)
T PF05673_consen  242 IDDLA  246 (249)
T ss_pred             HHHHh
Confidence            76553

>KOG0733|consensus

Probab=99.48  E-value=8.4e-13  Score=132.06  Aligned_cols=186  Identities=18%  Similarity=0.244  Sum_probs=126.0

Q ss_pred             CcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC--
Q psy12150         43 TIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD--  107 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~--  107 (456)
                      +|+++-+.+++..+|..++-            +-..|. +|++||||||||.+|++++++...     +|+.+.+...  
T Consensus       509 tW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~-----NFisVKGPELlN  583 (802)
T KOG0733|consen  509 TWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGA-----NFISVKGPELLN  583 (802)
T ss_pred             ChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccC-----ceEeecCHHHHH
Confidence            68898888988888877763            122333 999999999999999999998643     5666544431  


Q ss_pred             cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH-----------HHHHHHHHHHhc--cCcceEEEEe
Q psy12150        108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTMEKE--TKSTRFCLIC  174 (456)
Q Consensus       108 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~-----------~~~~Ll~~le~~--~~~~~lIl~~  174 (456)
                      ..+++-...++..++.+..     ..||    |||+||+|.|.+.           ..+.|+--|+..  ...+.+|.++
T Consensus       584 kYVGESErAVR~vFqRAR~-----saPC----VIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaAT  654 (802)
T KOG0733|consen  584 KYVGESERAVRQVFQRARA-----SAPC----VIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAAT  654 (802)
T ss_pred             HHhhhHHHHHHHHHHHhhc-----CCCe----EEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeec
Confidence            1123333444444444322     3566    9999999999652           234454444322  2346677778


Q ss_pred             cCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHc------CCCHHHHHHHHHHH
Q psy12150        175 NYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETS------GGDMRRAITCLQSC  242 (456)
Q Consensus       175 ~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~-~l~~L~~~s------~gdlr~~~~~L~~~  242 (456)
                      |.+..+.+++.+-+.   .+....|+.++..++|+.+.+..+..++++ .++.|+...      |.|+..++++-..+
T Consensus       655 NRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~~~c~gftGADLaaLvreAsi~  732 (802)
T KOG0733|consen  655 NRPDIIDPAILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARNTKCEGFTGADLAALVREASIL  732 (802)
T ss_pred             CCCcccchhhcCCCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhcccccCCchhhHHHHHHHHHHH
Confidence            888999999987765   677788999999999999998666666544 467777643      34666555554433

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.48  E-value=8.9e-13  Score=129.39  Aligned_cols=209  Identities=19%  Similarity=0.212  Sum_probs=144.6

Q ss_pred             CCcccccccHHHHHHHHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHH
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~~~~--~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~  119 (456)
                      ..+++++|......++.+.++.-.+.  ++|++|++|+||+.+|++++.. ....+..+++.+||......-...+ +..
T Consensus        75 ~~~~~LIG~~~~~~~~~eqik~~ap~~~~vLi~GetGtGKel~A~~iH~~-s~r~~~~PFI~~NCa~~~en~~~~e-LFG  152 (403)
T COG1221          75 EALDDLIGESPSLQELREQIKAYAPSGLPVLIIGETGTGKELFARLIHAL-SARRAEAPFIAFNCAAYSENLQEAE-LFG  152 (403)
T ss_pred             hhhhhhhccCHHHHHHHHHHHhhCCCCCcEEEecCCCccHHHHHHHHHHh-hhcccCCCEEEEEHHHhCcCHHHHH-Hhc
Confidence            46789999998888888888763332  2999999999999999999943 2222567899999998544332222 333


Q ss_pred             HHHhhccCCCCCCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHh-----------ccCcceEEEEecCc--ccccc
Q psy12150        120 FAQQTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEK-----------ETKSTRFCLICNYV--SCIIQ  182 (456)
Q Consensus       120 ~~~~~~~~~~~~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~-----------~~~~~~lIl~~~~~--~kl~~  182 (456)
                      ....++.+ +..++++    ++..++|+||++.|+...|..|+++|++           .+.++++|++++..  ..+.+
T Consensus       153 ~~kGaftG-a~~~k~Glfe~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVRli~AT~~~l~~~~~~  231 (403)
T COG1221         153 HEKGAFTG-AQGGKAGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVRLICATTEDLEEAVLA  231 (403)
T ss_pred             cccceeec-ccCCcCchheecCCCEEehhhhhhCCHhHHHHHHHHHHcCceEecCCCCCcCCCceeeeccccCHHHHHHh
Confidence            33333333 3333333    5667999999999999999999999987           34567788777642  44555


Q ss_pred             --cccCCce--EEEecCCCH--HHHHH----HHHHHHHHcCCCC---CHHHHHHHHHH-cCCCHHHHHHHHHHHHHhhCC
Q psy12150        183 --PLTSRCS--KFRFKPLAE--NTMLT----RLQYICEQESVMC---DFKALETLVET-SGGDMRRAITCLQSCARLKGG  248 (456)
Q Consensus       183 --~l~~r~~--~i~f~~~~~--~el~~----~l~~~~~~~~~~i---~~~~l~~L~~~-s~gdlr~~~~~L~~~~~~~~~  248 (456)
                        .+..|..  .|+++|+.+  +++..    ++...+++.+..+   +++++..|..+ .+||+|++.|.++.++..+..
T Consensus       232 g~dl~~rl~~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~L~~y~~pGNirELkN~Ve~~~~~~~~  311 (403)
T COG1221         232 GADLTRRLNILTITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRALLAYDWPGNIRELKNLVERAVAQASG  311 (403)
T ss_pred             hcchhhhhcCceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHHhcc
Confidence              6666544  777877764  33333    3445555555443   35677776665 699999999999999987754


Q ss_pred             CCCCH
Q psy12150        249 EGIVN  253 (456)
Q Consensus       249 ~~It~  253 (456)
                      ..++.
T Consensus       312 ~~~~~  316 (403)
T COG1221         312 EGQDL  316 (403)
T ss_pred             ccCCc
Confidence            44443

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=99.48  E-value=2.5e-12  Score=116.48  Aligned_cols=177  Identities=16%  Similarity=0.182  Sum_probs=135.7

Q ss_pred             HHHHHHHHhcCCCCe-EEEECCCC-CcHHHHHHHHHHHhcCCcc----ccceEEeeCC-------CCcChHHHHHHHHHH
Q psy12150         54 VSVLKKCLSGADLPH-FLFYGPPG-TGKTSTMIAACHQLFGDMY----RERILELNAS-------DDRGIQVIRDKVKTF  120 (456)
Q Consensus        54 ~~~l~~~l~~~~~~~-~Ll~G~~G-~GKT~~a~~l~~~l~~~~~----~~~~~e~n~~-------~~~~~~~i~~~l~~~  120 (456)
                      ++.+.+.++.+++.| |||.|..+ +||..++..+++.+.+...    ..++..+...       ...+++.+++....+
T Consensus         2 ~~~L~~~iq~~kLshAYLfeG~n~~~~~~~~~~f~~~~l~~~~i~~~~HPD~~~I~pe~~~~~~~~~I~IdqIReL~~~l   81 (263)
T PRK06581          2 IERLEFNLKHNKLYNSWLIEAENIEQALKDLEKFIYIKLFKNSIPLENNPDYHFIARETSATSNAKNISIEQIRKLQDFL   81 (263)
T ss_pred             hHHHHHHHHcCcchheeeEeCCChhhHHHHHHHHHHHHHhccCcccCCCCCEEEEeccccccccCCcccHHHHHHHHHHH
Confidence            467889999999988 99999998 9999999998888765211    1134444322       234677888876666


Q ss_pred             HHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEEecCCCHHH
Q psy12150        121 AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENT  200 (456)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~e  200 (456)
                      ...+..+         ++||++|+++|.|+.++.++|++.+|+|++.++|+++++.+..+.+.++|||+.+.|..+....
T Consensus        82 ~~~p~~g---------~~KViII~~ae~mt~~AANALLKtLEEPP~~t~fILit~~~~~LLpTIrSRCq~i~~~~p~~~~  152 (263)
T PRK06581         82 SKTSAIS---------GYKVAIIYSAELMNLNAANSCLKILEDAPKNSYIFLITSRAASIISTIRSRCFKINVRSSILHA  152 (263)
T ss_pred             hhCcccC---------CcEEEEEechHHhCHHHHHHHHHhhcCCCCCeEEEEEeCChhhCchhHhhceEEEeCCCCCHHH
Confidence            5554433         7889999999999999999999999999999999999999999999999999999999999988


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy12150        201 MLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSC  242 (456)
Q Consensus       201 l~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~  242 (456)
                      ..++....+.-   ..+..-++.|.+.+.-|........+.+
T Consensus       153 ~~e~~~~~~~p---~~~~~~l~~i~~~~~~d~~~w~~~~~~~  191 (263)
T PRK06581        153 YNELYSQFIQP---IADNKTLDFINRFTTKDRELWLDFIDNL  191 (263)
T ss_pred             HHHHHHHhccc---ccccHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            87776655432   2345557777776655555555444443

>KOG0739|consensus

Probab=99.48  E-value=4.3e-13  Score=123.49  Aligned_cols=175  Identities=18%  Similarity=0.248  Sum_probs=118.1

Q ss_pred             CcccccccHHHHHHHHHHH----------hcCCCC--eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc--
Q psy12150         43 TIDDVIEQQEVVSVLKKCL----------SGADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR--  108 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l----------~~~~~~--~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~--  108 (456)
                      .|+++.|.+..++.|++++          .+++.|  .+|||||||+||+++|++++.+.+.     .++.++.++..  
T Consensus       131 kWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnS-----TFFSvSSSDLvSK  205 (439)
T KOG0739|consen  131 KWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANS-----TFFSVSSSDLVSK  205 (439)
T ss_pred             chhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCC-----ceEEeehHHHHHH
Confidence            6999999999999999875          344433  3999999999999999999998653     56667666632  


Q ss_pred             ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH----HH-------HHHHHHH---hccCcceEEEEe
Q psy12150        109 GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA----QA-------ALRRTME---KETKSTRFCLIC  174 (456)
Q Consensus       109 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~----~~-------~Ll~~le---~~~~~~~lIl~~  174 (456)
                      ..++....+..+...+..     .+|+    ||||||+|.+....    .+       .|+--|+   +....+.++-++
T Consensus       206 WmGESEkLVknLFemARe-----~kPS----IIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgAT  276 (439)
T KOG0739|consen  206 WMGESEKLVKNLFEMARE-----NKPS----IIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVLGAT  276 (439)
T ss_pred             HhccHHHHHHHHHHHHHh-----cCCc----EEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEEecC
Confidence            223334444554444332     2333    99999999986421    11       1222232   223345555667


Q ss_pred             cCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Q psy12150        175 NYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGD  231 (456)
Q Consensus       175 ~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gd  231 (456)
                      |-++.+..++++|+. +|.++-|.........+-.+-.....+++..+..|++.+.|.
T Consensus       277 NiPw~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeGy  334 (439)
T KOG0739|consen  277 NIPWVLDSAIRRRFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEGY  334 (439)
T ss_pred             CCchhHHHHHHHHhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCCC
Confidence            788999999999998 566655555554444554555555678999999999988763

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.47  E-value=1.2e-12  Score=128.05  Aligned_cols=206  Identities=16%  Similarity=0.157  Sum_probs=134.4

Q ss_pred             ccccHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhh
Q psy12150         47 VIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQT  124 (456)
Q Consensus        47 ivg~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~  124 (456)
                      ++|....++.+.+.++.-.  ..+++|+|++||||+++|++++.....  ...+++.+||..... ..+...+.......
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s~r--~~~pfv~vnc~~~~~-~~l~~~lfG~~~g~   77 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSKR--WQGPLVKLNCAALSE-NLLDSELFGHEAGA   77 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhcCc--cCCCeEEEeCCCCCh-HHHHHHHhcccccc
Confidence            4677766666666554322  234999999999999999999986432  234789999986432 22222221111000


Q ss_pred             ccCCC--CCCC-CCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------cccccc
Q psy12150        125 ASGFN--QDGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCIIQP  183 (456)
Q Consensus       125 ~~~~~--~~~~-~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~kl~~~  183 (456)
                      +.+..  ..|. ..++..+|||||++.|+...|..|+++|++..           ..+++|++++..       ..+.+.
T Consensus        78 ~~ga~~~~~G~~~~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~~l~~~~~~g~fr~d  157 (329)
T TIGR02974        78 FTGAQKRHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALAAEGRFRAD  157 (329)
T ss_pred             ccCcccccCCchhhCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechhhHHHHhhcCchHHH
Confidence            00000  0000 01344599999999999999999999998643           345777777642       233455


Q ss_pred             ccCCce--EEEecCCC--HHHHHHHHHHH----HHHcC----CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCCCC
Q psy12150        184 LTSRCS--KFRFKPLA--ENTMLTRLQYI----CEQES----VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGGEG  250 (456)
Q Consensus       184 l~~r~~--~i~f~~~~--~~el~~~l~~~----~~~~~----~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~~~~~  250 (456)
                      |..|+.  .++++|+.  .+++..++...    +.+.|    ..+++++++.|..+. +||+|++.+.++.++..+.+..
T Consensus       158 L~~rl~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~ls~~a~~~L~~y~WPGNvrEL~n~i~~~~~~~~~~~  237 (329)
T TIGR02974       158 LLDRLAFDVITLPPLRERQEDIMLLAEHFAIRMARELGLPLFPGFTPQAREQLLEYHWPGNVRELKNVVERSVYRHGLEE  237 (329)
T ss_pred             HHHHhcchhcCCCchhhhhhhHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHhCCCCchHHHHHHHHHHHHHhCCCCc
Confidence            666664  67778877  46666555444    33333    368999999999875 9999999999999888765556


Q ss_pred             CCHHH
Q psy12150        251 IVNED  255 (456)
Q Consensus       251 It~~~  255 (456)
                      ++.++
T Consensus       238 ~~~~~  242 (329)
T TIGR02974       238 APIDE  242 (329)
T ss_pred             cchhh
Confidence            76665

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

>KOG1968|consensus

Probab=99.47  E-value=3e-13  Score=144.82  Aligned_cols=207  Identities=26%  Similarity=0.382  Sum_probs=159.4

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcC-----------CCC-----eEEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGA-----------DLP-----HFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~-----------~~~-----~~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      ...|.++|+|....++.|.......+.+|+...           ...     .++++||||+|||+.+..+++.++.   
T Consensus       307 ~~~~~~k~~p~~~k~~~~~~~~~~~~~~~l~~~k~~~~~sy~~~~~~ss~~~~~l~~G~pGigKT~~~h~~~k~~g~---  383 (871)
T KOG1968|consen  307 GAGWTEKYQPTSSKALEGNASSSKKASKWLAKSKDKEKSSYKENEPDSSKKKALLLSGPPGIGKTTAAHKAAKELGF---  383 (871)
T ss_pred             ccccccccccccHHhhhcccchhhhhhhHHHhhhccccccccccCcchhhHHHHHhcCCCCCCchhhHhhhhhhccc---
Confidence            578999999999999999988887888888654           111     1499999999999999999998744   


Q ss_pred             ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCC--CCC-C--CCCcEEEEEcCCCCccHHH---HHHHHHHHHhccCc
Q psy12150         96 RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ--DGK-P--CPPFKIVILDEADSMTHAA---QAALRRTMEKETKS  167 (456)
Q Consensus        96 ~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~--~~~-~--~~~~~iviIDE~d~l~~~~---~~~Ll~~le~~~~~  167 (456)
                        .++++|+++.++...+.+.+..+..........  .+- .  ...+-||++||+|.+..+.   ...+..++.+  ..
T Consensus       384 --~v~E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~devD~~~~~dRg~v~~l~~l~~k--s~  459 (871)
T KOG1968|consen  384 --KVVEKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILMDEVDGMFGEDRGGVSKLSSLCKK--SS  459 (871)
T ss_pred             --ceeecCccccccccHHHhhhhccccccchhhhhcccccccccccceeEEEEeccccccchhhhhHHHHHHHHHh--cc
Confidence              799999999888777777776654332211110  000 0  0234499999999998833   3444455552  22


Q ss_pred             ceEEEEecCccc-ccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy12150        168 TRFCLICNYVSC-IIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL  245 (456)
Q Consensus       168 ~~lIl~~~~~~k-l~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~  245 (456)
                      ..+|++||++.. ..+++.+.|..++|..|+.+.+..++..+|..+++.++++.++.+.+.++||+|++++.|+.+...
T Consensus       460 ~Piv~~cndr~~p~sr~~~~~~~~l~f~kP~~~~i~~ri~si~~se~~ki~~~~l~~~s~~~~~DiR~~i~~lq~~~~~  538 (871)
T KOG1968|consen  460 RPLVCTCNDRNLPKSRALSRACSDLRFSKPSSELIRSRIMSICKSEGIKISDDVLEEISKLSGGDIRQIIMQLQFWSLS  538 (871)
T ss_pred             CCeEEEecCCCCccccchhhhcceeeecCCcHHHHHhhhhhhhcccceecCcHHHHHHHHhcccCHHHHHHHHhhhhcc
Confidence            346677887644 345677778999999999999999999999999999999999999999999999999999998543

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=99.46  E-value=1.3e-12  Score=139.79  Aligned_cols=211  Identities=16%  Similarity=0.143  Sum_probs=144.2

Q ss_pred             CCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc-----ccceEEeeCCCC----cCh
Q psy12150         40 RPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----RERILELNASDD----RGI  110 (456)
Q Consensus        40 ~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~-----~~~~~e~n~~~~----~~~  110 (456)
                      +-..++.++|++..++.+.+.+......+++|+||||||||++++.++..+.....     ...++.++....    ...
T Consensus       181 ~~g~~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~~~  260 (758)
T PRK11034        181 RVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYR  260 (758)
T ss_pred             HcCCCCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccchh
Confidence            45678899999999999999998877777999999999999999999987643221     112333322210    111


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH---------HHHHHHHHHHHhccCcceEEEEecCc----
Q psy12150        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH---------AAQAALRRTMEKETKSTRFCLICNYV----  177 (456)
Q Consensus       111 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~---------~~~~~Ll~~le~~~~~~~lIl~~~~~----  177 (456)
                      +...+.+..+.......         ...+|||||+|.+..         +..+.|..++++  ....+|.+++..    
T Consensus       261 Ge~e~rl~~l~~~l~~~---------~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~--g~i~vIgATt~~E~~~  329 (758)
T PRK11034        261 GDFEKRFKALLKQLEQD---------TNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGSTTYQEFSN  329 (758)
T ss_pred             hhHHHHHHHHHHHHHhc---------CCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC--CCeEEEecCChHHHHH
Confidence            23333333332221111         223999999998832         123345556654  345666666642    


Q ss_pred             -ccccccccCCceEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHHHHHHhh
Q psy12150        178 -SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGG------DMRRAITCLQSCARLK  246 (456)
Q Consensus       178 -~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~----~~~~i~~~~l~~L~~~s~g------dlr~~~~~L~~~~~~~  246 (456)
                       ....++|.+|+..+.+++|+.++...+|+....+    .++.++++++..++..+..      -+..++..|+.++...
T Consensus       330 ~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdKaidlldea~a~~  409 (758)
T PRK11034        330 IFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGARA  409 (758)
T ss_pred             HhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHHHHHHHHHHHHhh
Confidence             2467889999999999999999999999876543    5788999999998877643      3568999998887533


Q ss_pred             -------CCCCCCHHHHHHHhC
Q psy12150        247 -------GGEGIVNEDVLEVTG  261 (456)
Q Consensus       247 -------~~~~It~~~v~~~~~  261 (456)
                             ....|+.++|.++++
T Consensus       410 ~~~~~~~~~~~v~~~~i~~v~~  431 (758)
T PRK11034        410 RLMPVSKRKKTVNVADIESVVA  431 (758)
T ss_pred             ccCcccccccccChhhHHHHHH
Confidence                   133588888887764

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.46  E-value=8e-13  Score=144.94  Aligned_cols=207  Identities=16%  Similarity=0.160  Sum_probs=148.3

Q ss_pred             CCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCc-----cccceEEeeC
Q psy12150         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNA  104 (456)
Q Consensus        30 ~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-----~~~~~~e~n~  104 (456)
                      ....++.++.+|..++.++|+++.++.+...+.+....+.+|+||||+|||++++.++..+....     ....++.++.
T Consensus       158 ~~~~~l~~~~~~~~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~  237 (852)
T TIGR03346       158 KYARDLTERAREGKLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDM  237 (852)
T ss_pred             HHhhhHHHHhhCCCCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeH
Confidence            45568899999999999999999999999999887777799999999999999999999874421     1234555543


Q ss_pred             CCC----cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--------HHHHHHHHHHHhccCcceEEE
Q psy12150        105 SDD----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------AAQAALRRTMEKETKSTRFCL  172 (456)
Q Consensus       105 ~~~----~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--------~~~~~Ll~~le~~~~~~~lIl  172 (456)
                      ...    .........+..+.......    +    ...||||||+|.+.+        +..+.|..++++  ....+|.
T Consensus       238 ~~l~a~~~~~g~~e~~l~~~l~~~~~~----~----~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~--g~i~~Ig  307 (852)
T TIGR03346       238 GALIAGAKYRGEFEERLKAVLNEVTKS----E----GQIILFIDELHTLVGAGKAEGAMDAGNMLKPALAR--GELHCIG  307 (852)
T ss_pred             HHHhhcchhhhhHHHHHHHHHHHHHhc----C----CCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhc--CceEEEE
Confidence            321    11122333333333222110    0    234999999998863        234555566654  3456666


Q ss_pred             EecCc-----ccccccccCCceEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC---C---HHHHHH
Q psy12150        173 ICNYV-----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGG---D---MRRAIT  237 (456)
Q Consensus       173 ~~~~~-----~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~----~~~~i~~~~l~~L~~~s~g---d---lr~~~~  237 (456)
                      +++..     ....+++.+|+..+.+..|+.++...+++....+    .++.++++++..++..+.+   |   +..++.
T Consensus       308 aTt~~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~~~d~~i~~~~~ls~~yi~~r~lPdkAid  387 (852)
T TIGR03346       308 ATTLDEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYITDRFLPDKAID  387 (852)
T ss_pred             eCcHHHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhccccccccCCchHHHH
Confidence            66532     3467899999999999999999999998876554    4677899999999988764   3   778999


Q ss_pred             HHHHHHHhh
Q psy12150        238 CLQSCARLK  246 (456)
Q Consensus       238 ~L~~~~~~~  246 (456)
                      .|+.+++..
T Consensus       388 lld~a~a~~  396 (852)
T TIGR03346       388 LIDEAAARI  396 (852)
T ss_pred             HHHHHHHHH
Confidence            999887654

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.46  E-value=2.6e-12  Score=139.35  Aligned_cols=183  Identities=17%  Similarity=0.224  Sum_probs=122.1

Q ss_pred             CCCcccccccHHHHHHHHHHHhc-----------C-C-CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLSG-----------A-D-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~~-----------~-~-~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      ..+|+++.|.+..++.+.+++..           + . ..+++||||||||||++++++++.+..     .++.+++.+.
T Consensus       174 ~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~-----~~i~i~~~~i  248 (733)
T TIGR01243       174 KVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGA-----YFISINGPEI  248 (733)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCC-----eEEEEecHHH
Confidence            35899999999999999887631           1 1 223999999999999999999998743     4566665431


Q ss_pred             cC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHhcc--CcceEEE
Q psy12150        108 RG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEKET--KSTRFCL  172 (456)
Q Consensus       108 ~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~~~--~~~~lIl  172 (456)
                      ..  .......+..+.......     .|    .+|||||+|.+..           ..+..|+..++...  ..+++|.
T Consensus       249 ~~~~~g~~~~~l~~lf~~a~~~-----~p----~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI~  319 (733)
T TIGR01243       249 MSKYYGESEERLREIFKEAEEN-----AP----SIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIG  319 (733)
T ss_pred             hcccccHHHHHHHHHHHHHHhc-----CC----cEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEEe
Confidence            11  111222233333222111     12    2999999998753           23456777776432  3455666


Q ss_pred             EecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHH
Q psy12150        173 ICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCD-FKALETLVETSGGDMRRAITCL  239 (456)
Q Consensus       173 ~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~-~~~l~~L~~~s~gdlr~~~~~L  239 (456)
                      ++|.+..+.+++++  |+. .+.|..|+.++..++++...+.  ..+. +..++.+++.++|....-+..+
T Consensus       320 atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~--~~l~~d~~l~~la~~t~G~~gadl~~l  388 (733)
T TIGR01243       320 ATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRN--MPLAEDVDLDKLAEVTHGFVGADLAAL  388 (733)
T ss_pred             ecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcC--CCCccccCHHHHHHhCCCCCHHHHHHH
Confidence            78888888888876  443 7899999999999999866543  3343 4457889999988655444443

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.

>KOG1942|consensus

Probab=99.45  E-value=6.3e-12  Score=115.61  Aligned_cols=122  Identities=23%  Similarity=0.279  Sum_probs=102.6

Q ss_pred             EEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC-------------cccccccccCCceEEEecCCCHHHHHHHH
Q psy12150        139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY-------------VSCIIQPLTSRCSKFRFKPLAENTMLTRL  205 (456)
Q Consensus       139 ~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~-------------~~kl~~~l~~r~~~i~f~~~~~~el~~~l  205 (456)
                      .++||||++.|.-+++..|.+.++.+- .+++||++|.             ++-+.+.+..|...+...+++++++++++
T Consensus       298 GVLFIDEVhMLDiEcFTyL~kalES~i-aPivifAsNrG~~~irGt~d~~sPhGip~dllDRl~Iirt~~y~~~e~r~Ii  376 (456)
T KOG1942|consen  298 GVLFIDEVHMLDIECFTYLHKALESPI-APIVIFASNRGMCTIRGTEDILSPHGIPPDLLDRLLIIRTLPYDEEEIRQII  376 (456)
T ss_pred             cceEeeehhhhhhHHHHHHHHHhcCCC-CceEEEecCCcceeecCCcCCCCCCCCCHHHhhheeEEeeccCCHHHHHHHH
Confidence            399999999999999999999998764 4667888874             34567789999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHH---HHhhCCCCCCHHHHHHHhC
Q psy12150        206 QYICEQESVMCDFKALETLVETS-GGDMRRAITCLQSC---ARLKGGEGIVNEDVLEVTG  261 (456)
Q Consensus       206 ~~~~~~~~~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~---~~~~~~~~It~~~v~~~~~  261 (456)
                      +.+++.+|+.+++++++.+++.. ..++|.+++.|--+   +...+++.|..+||.++..
T Consensus       377 ~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee~~~  436 (456)
T KOG1942|consen  377 KIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEVTE  436 (456)
T ss_pred             HHHHhhhcceecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHHHH
Confidence            99999999999999999999864 56899999998643   3333677899999877653

>KOG0737|consensus

Probab=99.45  E-value=6.5e-13  Score=126.34  Aligned_cols=188  Identities=22%  Similarity=0.267  Sum_probs=126.2

Q ss_pred             CcccccccHHHHHHHHHHHh----------cC---CCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC-
Q psy12150         43 TIDDVIEQQEVVSVLKKCLS----------GA---DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD-  107 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~----------~~---~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~-  107 (456)
                      +|+||-|.+.+++.+++.+-          .+   +++ ++|+|||||||||.+|++++++.+..     ++.+..+.. 
T Consensus        90 ~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~-----fInv~~s~lt  164 (386)
T KOG0737|consen   90 SFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGAN-----FINVSVSNLT  164 (386)
T ss_pred             ehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCC-----cceeeccccc
Confidence            78999999999999887751          12   122 39999999999999999999998664     444444432 


Q ss_pred             -cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH-------HHHH-HHHH-------HhccCcceEE
Q psy12150        108 -RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA-------QAAL-RRTM-------EKETKSTRFC  171 (456)
Q Consensus       108 -~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~-------~~~L-l~~l-------e~~~~~~~lI  171 (456)
                       ...++-...+......+     ..-.|+    +|||||+|.+....       .... .++|       .+....+.+.
T Consensus       165 ~KWfgE~eKlv~AvFslA-----sKl~P~----iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVl  235 (386)
T KOG0737|consen  165 SKWFGEAQKLVKAVFSLA-----SKLQPS----IIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKDSERVLVL  235 (386)
T ss_pred             hhhHHHHHHHHHHHHhhh-----hhcCcc----eeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCCCceEEEE
Confidence             22233333333332222     223455    99999999886321       1111 1111       1222334455


Q ss_pred             EEecCcccccccccCCc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy12150        172 LICNYVSCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL  245 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~  245 (456)
                      .++|.+..+..++.+|. .+++..-|+..+..++|+-+++.+.+. ++-.+..++..+.|.-..-+.++...+.+
T Consensus       236 gATNRP~DlDeAiiRR~p~rf~V~lP~~~qR~kILkviLk~e~~e-~~vD~~~iA~~t~GySGSDLkelC~~Aa~  309 (386)
T KOG0737|consen  236 GATNRPFDLDEAIIRRLPRRFHVGLPDAEQRRKILKVILKKEKLE-DDVDLDEIAQMTEGYSGSDLKELCRLAAL  309 (386)
T ss_pred             eCCCCCccHHHHHHHhCcceeeeCCCchhhHHHHHHHHhcccccC-cccCHHHHHHhcCCCcHHHHHHHHHHHhH
Confidence            56678899999988885 589999999999999999999988876 55567889999988655555555454444

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.45  E-value=2.6e-12  Score=140.05  Aligned_cols=193  Identities=18%  Similarity=0.296  Sum_probs=135.4

Q ss_pred             ccccccHHHHHHHHHHHhc--------CCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHH
Q psy12150         45 DDVIEQQEVVSVLKKCLSG--------ADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~--------~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~  115 (456)
                      +.++||+..+..+.+.+..        .++.. ++|+||+|+|||.+++++++.+.+...  .++.+|+++......+..
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~--~~~~~dmse~~~~~~~~~  643 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQ--NLITINMSEFQEAHTVSR  643 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCc--ceEEEeHHHhhhhhhhcc
Confidence            3678999999888888742        12222 899999999999999999999875432  566777665322221111


Q ss_pred             HHHHHHHhhccCCC--CCCC-----CCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc
Q psy12150        116 KVKTFAQQTASGFN--QDGK-----PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV  177 (456)
Q Consensus       116 ~l~~~~~~~~~~~~--~~~~-----~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~  177 (456)
                      .+    ..++...+  ..|.     ...++.||++||++.+.++.++.|++++++..           .++++|+++|-.
T Consensus       644 l~----g~~~gyvg~~~~g~L~~~v~~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNlg  719 (852)
T TIGR03345       644 LK----GSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNAG  719 (852)
T ss_pred             cc----CCCCCcccccccchHHHHHHhCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCCCc
Confidence            10    00000000  0000     00245699999999999999999999998764           578899988721


Q ss_pred             -----------c------------------cccccccCCceEEEecCCCHHHHHHHHHHHHHH-------c-C--CCCCH
Q psy12150        178 -----------S------------------CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ-------E-S--VMCDF  218 (456)
Q Consensus       178 -----------~------------------kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~-------~-~--~~i~~  218 (456)
                                 .                  .+.++|.+|+.++.|.|++.+++.+++...+.+       . |  +.+++
T Consensus       720 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEflnRi~iI~F~pLs~e~l~~Iv~~~L~~l~~rl~~~~gi~l~i~d  799 (852)
T TIGR03345       720 SDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLGRMTVIPYLPLDDDVLAAIVRLKLDRIARRLKENHGAELVYSE  799 (852)
T ss_pred             hHHHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhcceeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHhcCceEEECH
Confidence                       0                  134667899999999999999999988776543       1 4  36799


Q ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHH
Q psy12150        219 KALETLVETSGG---DMRRAITCLQSCA  243 (456)
Q Consensus       219 ~~l~~L~~~s~g---dlr~~~~~L~~~~  243 (456)
                      ++++.|++.+.+   +.|.+.+.++...
T Consensus       800 ~a~~~La~~g~~~~~GAR~L~r~Ie~~i  827 (852)
T TIGR03345       800 ALVEHIVARCTEVESGARNIDAILNQTL  827 (852)
T ss_pred             HHHHHHHHHcCCCCCChHHHHHHHHHHH
Confidence            999999998876   7899999987743

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.

>KOG0743|consensus

Probab=99.44  E-value=3e-12  Score=125.12  Aligned_cols=160  Identities=18%  Similarity=0.208  Sum_probs=112.8

Q ss_pred             CCCcchh--ccCCCCcccccccHHHHH----HHHHHHhc-------CCCC--eEEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         31 KPVPWVE--KYRPKTIDDVIEQQEVVS----VLKKCLSG-------ADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        31 ~~~~w~e--ky~P~~~~~ivg~~~~~~----~l~~~l~~-------~~~~--~~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      ....|..  --.|.+|+.++-.+..++    .|.+++++       |++.  .||||||||||||+++.|+|+.+..   
T Consensus       185 ~~~~W~~v~f~HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~y---  261 (457)
T KOG0743|consen  185 KGGEWRSVGFPHPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNY---  261 (457)
T ss_pred             cCCcceecCCCCCCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCC---
Confidence            3556633  334789999887665554    45555543       3332  3999999999999999999999865   


Q ss_pred             ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH------------------HHHHHH
Q psy12150         96 RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH------------------AAQAAL  157 (456)
Q Consensus        96 ~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~------------------~~~~~L  157 (456)
                        ++..++.+....-.+++..+...               +++.||+|+|+|.-..                  -....|
T Consensus       262 --dIydLeLt~v~~n~dLr~LL~~t---------------~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGL  324 (457)
T KOG0743|consen  262 --DIYDLELTEVKLDSDLRHLLLAT---------------PNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGL  324 (457)
T ss_pred             --ceEEeeeccccCcHHHHHHHHhC---------------CCCcEEEEeecccccccccccccccccccCCcceeehHHh
Confidence              44555555444444454443332               2455999999987521                  124578


Q ss_pred             HHHHHhccCc----ceEEEEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHH
Q psy12150        158 RRTMEKETKS----TRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICE  210 (456)
Q Consensus       158 l~~le~~~~~----~~lIl~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~  210 (456)
                      ++.++.....    -++||++|...+++|+|.+++.   .+++...+.+.+.....+.+.
T Consensus       325 LNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~  384 (457)
T KOG0743|consen  325 LNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLG  384 (457)
T ss_pred             hhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcC
Confidence            8888765543    4799999999999999999775   788888899888887777654

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.44  E-value=3.1e-12  Score=132.02  Aligned_cols=215  Identities=15%  Similarity=0.140  Sum_probs=141.9

Q ss_pred             CCcccccccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHH
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~  119 (456)
                      .+|++++|....+..+.+.++.-  ...+++|+|++||||+.+|+.+++.-..  ...+++.+||..... ..+...+..
T Consensus       209 ~~f~~iiG~S~~m~~~~~~i~~~A~~~~pVLI~GE~GTGKe~lA~~IH~~S~r--~~~pfv~inC~~l~e-~lleseLFG  285 (526)
T TIGR02329       209 YRLDDLLGASAPMEQVRALVRLYARSDATVLILGESGTGKELVAQAIHQLSGR--RDFPFVAINCGAIAE-SLLEAELFG  285 (526)
T ss_pred             cchhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCcCHHHHHHHHHHhcCc--CCCCEEEeccccCCh-hHHHHHhcC
Confidence            56889999999888888777532  2235999999999999999999986432  234789999987432 222222211


Q ss_pred             HHHhhccCCCCCCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-c-----
Q psy12150        120 FAQQTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-S-----  178 (456)
Q Consensus       120 ~~~~~~~~~~~~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-~-----  178 (456)
                      ....++.+....++++    ++...||+||++.|+...|..|+++|++..           ..+.+|++++.. .     
T Consensus       286 ~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~~~dvRiIaat~~~l~~~v~~  365 (526)
T TIGR02329       286 YEEGAFTGARRGGRTGLIEAAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATHCALTTAVQQ  365 (526)
T ss_pred             CcccccccccccccccchhhcCCceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCceeeecceEEeccCCCHHHHhhh
Confidence            1111111110001111    345699999999999999999999998642           234677777643 1     


Q ss_pred             -cccccccCCc--eEEEecCCCH--HHHHHHHHHHH----HHcCCCCCHHHHHH-------HHHH-cCCCHHHHHHHHHH
Q psy12150        179 -CIIQPLTSRC--SKFRFKPLAE--NTMLTRLQYIC----EQESVMCDFKALET-------LVET-SGGDMRRAITCLQS  241 (456)
Q Consensus       179 -kl~~~l~~r~--~~i~f~~~~~--~el~~~l~~~~----~~~~~~i~~~~l~~-------L~~~-s~gdlr~~~~~L~~  241 (456)
                       .+.+.|..|.  ..++++|+.+  +++..++...+    ...++.++++++..       |..+ ++||+|++.|.++.
T Consensus       366 g~fr~dL~~rL~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~~~~~L~~y~WPGNvrEL~nvier  445 (526)
T TIGR02329       366 GRFRRDLFYRLSILRIALPPLRERPGDILPLAAEYLVQAAAALRLPDSEAAAQVLAGVADPLQRYPWPGNVRELRNLVER  445 (526)
T ss_pred             cchhHHHHHhcCCcEEeCCCchhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHHhHHHHHHHHhCCCCchHHHHHHHHHH
Confidence             2223344444  3677888864  45555544443    34566799999887       6554 59999999999999


Q ss_pred             HHHhh---CCCCCCHHHHHHH
Q psy12150        242 CARLK---GGEGIVNEDVLEV  259 (456)
Q Consensus       242 ~~~~~---~~~~It~~~v~~~  259 (456)
                      ++...   .+..|+.+++..+
T Consensus       446 ~~i~~~~~~~~~I~~~~l~~~  466 (526)
T TIGR02329       446 LALELSAMPAGALTPDVLRAL  466 (526)
T ss_pred             HHHhcccCCCCccCHHHhhhh
Confidence            88754   2457888887654

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.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=99.44  E-value=4.6e-12  Score=124.12  Aligned_cols=210  Identities=16%  Similarity=0.175  Sum_probs=137.1

Q ss_pred             cccccccHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHH
Q psy12150         44 IDDVIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFA  121 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~  121 (456)
                      +++++|....++.+.+.+..-.  ..+++|+|++||||+++|++++.....  ...+++.+||..... ..+...+....
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s~r--~~~pfv~v~c~~~~~-~~~~~~lfg~~   81 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLSSR--WQGPFISLNCAALNE-NLLDSELFGHE   81 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhCCc--cCCCeEEEeCCCCCH-HHHHHHHcccc
Confidence            5679999888877776665322  234999999999999999999975432  234789999987432 22322221111


Q ss_pred             HhhccCCCC--CCC-CCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------ccc
Q psy12150        122 QQTASGFNQ--DGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCI  180 (456)
Q Consensus       122 ~~~~~~~~~--~~~-~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~kl  180 (456)
                      ...+.+...  .+. ..++..+++|||++.|+...|..|++++++..           ..+++|++++..       ..+
T Consensus        82 ~~~~~g~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~~l~~l~~~g~f  161 (326)
T PRK11608         82 AGAFTGAQKRHPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVAEGKF  161 (326)
T ss_pred             ccccCCcccccCCchhccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCchhHHHHHHcCCc
Confidence            000000000  000 01244589999999999999999999997632           236677776542       234


Q ss_pred             cccccCCce--EEEecCCCH--HHHHHHHHHH----HHHcC----CCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhhC
Q psy12150        181 IQPLTSRCS--KFRFKPLAE--NTMLTRLQYI----CEQES----VMCDFKALETLVET-SGGDMRRAITCLQSCARLKG  247 (456)
Q Consensus       181 ~~~l~~r~~--~i~f~~~~~--~el~~~l~~~----~~~~~----~~i~~~~l~~L~~~-s~gdlr~~~~~L~~~~~~~~  247 (456)
                      .+.|..++.  .+.++|+.+  +++..++...    +.+.+    ..+++++++.|..+ .+||+|++.+.++.++..+.
T Consensus       162 ~~dL~~~l~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~al~~L~~y~WPGNvrEL~~vl~~a~~~~~  241 (326)
T PRK11608        162 RADLLDRLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLFPGFTERARETLLNYRWPGNIRELKNVVERSVYRHG  241 (326)
T ss_pred             hHHHHHhcCCCEEECCChhhhhhhHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhcC
Confidence            455666654  677888764  4555554443    44433    35899999999886 59999999999999887665


Q ss_pred             CCCCCHHHH
Q psy12150        248 GEGIVNEDV  256 (456)
Q Consensus       248 ~~~It~~~v  256 (456)
                      +..++.+++
T Consensus       242 ~~~~~~~~l  250 (326)
T PRK11608        242 TSEYPLDNI  250 (326)
T ss_pred             CCCCchhhc
Confidence            556665553

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.43  E-value=6.4e-12  Score=122.29  Aligned_cols=219  Identities=15%  Similarity=0.158  Sum_probs=131.4

Q ss_pred             CCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCC----ccccceEE--------------
Q psy12150         40 RPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD----MYRERILE--------------  101 (456)
Q Consensus        40 ~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~----~~~~~~~e--------------  101 (456)
                      .|-.|++++|+++++..+.-.+-.....|+||+|+||+|||++++++++-+..-    ...+....              
T Consensus         3 ~~~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~~~~~~~~~~~~~~   82 (334)
T PRK13407          3 KPFPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWAHVSSTT   82 (334)
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcccCCcccccccCCc
Confidence            477899999999999988765543334579999999999999999999987320    00000000              


Q ss_pred             ----------e--eCCCC--cChHHHHHHHHHHHHhhccCCCCCCCC-CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-
Q psy12150        102 ----------L--NASDD--RGIQVIRDKVKTFAQQTASGFNQDGKP-CPPFKIVILDEADSMTHAAQAALRRTMEKET-  165 (456)
Q Consensus       102 ----------~--n~~~~--~~~~~i~~~l~~~~~~~~~~~~~~~~~-~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-  165 (456)
                                +  +.+..  .|.-++...+.    ...+... .|.- .++..++++||++.+++..++.|++.|++.. 
T Consensus        83 ~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~----~g~~~~~-~G~l~~A~~GiL~lDEInrl~~~~q~~Lle~mee~~v  157 (334)
T PRK13407         83 MIERPTPVVDLPLGVTEDRVVGALDIERALT----RGEKAFE-PGLLARANRGYLYIDEVNLLEDHIVDLLLDVAQSGEN  157 (334)
T ss_pred             ccccCCccccCCCCCCcceeecchhhhhhhh----cCCeeec-CCceEEcCCCeEEecChHhCCHHHHHHHHHHHHcCCe
Confidence                      0  00000  00001111110    0000000 0000 0344699999999999999999999998643 


Q ss_pred             ------------CcceEEEEecCc-ccccccccCCce-EEEecCCCH-HHHHHHHHHHHH--------------------
Q psy12150        166 ------------KSTRFCLICNYV-SCIIQPLTSRCS-KFRFKPLAE-NTMLTRLQYICE--------------------  210 (456)
Q Consensus       166 ------------~~~~lIl~~~~~-~kl~~~l~~r~~-~i~f~~~~~-~el~~~l~~~~~--------------------  210 (456)
                                  ...+++.+.|.. ..+.+++..|+. .+.+.++.. ++..+++.....                    
T Consensus       158 ~v~r~G~~~~~p~rfiviAt~NP~e~~l~~aLldRF~~~v~v~~~~~~~e~~~il~~~~~~~~~~~~~~~~~~~~~~~~~  237 (334)
T PRK13407        158 VVEREGLSIRHPARFVLVGSGNPEEGELRPQLLDRFGLSVEVRSPRDVETRVEVIRRRDAYDADHDAFMAKWGAEDMQLR  237 (334)
T ss_pred             EEEECCeEEecCCCEEEEecCCcccCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHhhcccccchhhhccccccccCCH
Confidence                        223333333432 246677888876 666766655 554444443211                    


Q ss_pred             ---------HcCCCCCHHHHHHHHHHc---C-CCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCC
Q psy12150        211 ---------QESVMCDFKALETLVETS---G-GDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       211 ---------~~~~~i~~~~l~~L~~~s---~-gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~~~  263 (456)
                               -..+.++++.++++++.+   + ..+|..+..+..+..++   +...|+.+||+.+....
T Consensus       238 ~~i~~a~~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~~~v  306 (334)
T PRK13407        238 GRILGARARLPQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVATMA  306 (334)
T ss_pred             HHHHHHHHhcCCcccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHHHHh
Confidence                     134668888888877653   2 35777666665554444   78899999998877433

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.43  E-value=4.3e-12  Score=130.90  Aligned_cols=215  Identities=16%  Similarity=0.177  Sum_probs=138.5

Q ss_pred             CCcccccccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhc------CCccccceEEeeCCCCcChHHH
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLF------GDMYRERILELNASDDRGIQVI  113 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~------~~~~~~~~~e~n~~~~~~~~~i  113 (456)
                      .+|++++|....+..+.+.+..-  ...+++|+|++||||+.+|+++++.+.      ......+++.+||..... ..+
T Consensus       216 ~~f~~iiG~S~~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaal~e-~ll  294 (538)
T PRK15424        216 YVLGDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGAIAE-SLL  294 (538)
T ss_pred             cchhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeecccCCh-hhH
Confidence            36889999998888888777532  223599999999999999999998721      122344799999987432 222


Q ss_pred             HHHHHHHHHhhccCCCCCCCC----CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-
Q psy12150        114 RDKVKTFAQQTASGFNQDGKP----CPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-  177 (456)
Q Consensus       114 ~~~l~~~~~~~~~~~~~~~~~----~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-  177 (456)
                      ...+......++.+....+++    .++..+||+||++.|+...|..|+++|++..           .++++|++++.. 
T Consensus       295 eseLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~kLl~~L~e~~~~r~G~~~~~~~dvRiIaat~~~L  374 (538)
T PRK15424        295 EAELFGYEEGAFTGSRRGGRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCDL  374 (538)
T ss_pred             HHHhcCCccccccCccccccCCchhccCCCEEEEcChHhCCHHHHHHHHhhhhcCeEEecCCCceeccceEEEEecCCCH
Confidence            222211111111111000111    1345699999999999999999999998632           234677777643 


Q ss_pred             cc------ccccccCCce--EEEecCCCH--HHHHHHHHHHHH----HcCCCCCHHHH-------HHHHHH-cCCCHHHH
Q psy12150        178 SC------IIQPLTSRCS--KFRFKPLAE--NTMLTRLQYICE----QESVMCDFKAL-------ETLVET-SGGDMRRA  235 (456)
Q Consensus       178 ~k------l~~~l~~r~~--~i~f~~~~~--~el~~~l~~~~~----~~~~~i~~~~l-------~~L~~~-s~gdlr~~  235 (456)
                      ..      +.+.+..|..  .++++|+.+  +++..++...++    +.+..++++++       +.|..+ ++||+|++
T Consensus       375 ~~~v~~g~Fr~dL~yrL~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~a~~~L~~y~WPGNvREL  454 (538)
T PRK15424        375 EEDVRQGRFRRDLFYRLSILRLQLPPLRERVADILPLAESFLKQSLAALSAPFSAALRQGLQQCETLLLHYDWPGNVREL  454 (538)
T ss_pred             HHHHhcccchHHHHHHhcCCeecCCChhhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHhhHHHHHHHHhCCCCchHHHH
Confidence            11      2223444443  677777764  566655555544    35667888776       344433 69999999


Q ss_pred             HHHHHHHHHhhCC---CCCCHHHHH
Q psy12150        236 ITCLQSCARLKGG---EGIVNEDVL  257 (456)
Q Consensus       236 ~~~L~~~~~~~~~---~~It~~~v~  257 (456)
                      .|.++.++.+..+   ..|+.+++.
T Consensus       455 ~nvier~~i~~~~~~~~~i~~~~l~  479 (538)
T PRK15424        455 RNLMERLALFLSVEPTPDLTPQFLQ  479 (538)
T ss_pred             HHHHHHHHHhcCCCCcCccCHHHhh
Confidence            9999999887532   467766654

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.43  E-value=8.6e-13  Score=144.18  Aligned_cols=207  Identities=17%  Similarity=0.155  Sum_probs=146.5

Q ss_pred             CCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc-----ccceEEeeC
Q psy12150         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----RERILELNA  104 (456)
Q Consensus        30 ~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~-----~~~~~e~n~  104 (456)
                      ....++.++-+|..++.++|+++.++++.+.+.+...++.+|+||||+|||++++.++..+..+..     ...++.++.
T Consensus       163 ~~~~~l~~~~r~~~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l  242 (857)
T PRK10865        163 KYTIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM  242 (857)
T ss_pred             HHhhhHHHHHhcCCCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEeh
Confidence            445688899999999999999999999999998887778999999999999999999998754221     234555544


Q ss_pred             CCC----cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------HHHHHHHHHHhccCcceEEE
Q psy12150        105 SDD----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------AQAALRRTMEKETKSTRFCL  172 (456)
Q Consensus       105 ~~~----~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------~~~~Ll~~le~~~~~~~lIl  172 (456)
                      ...    ...+...+.+..........    +    ...|+||||+|.+.+.        ..+.|..++++.  ...+|.
T Consensus       243 ~~l~ag~~~~g~~e~~lk~~~~~~~~~----~----~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g--~l~~Ig  312 (857)
T PRK10865        243 GALVAGAKYRGEFEERLKGVLNDLAKQ----E----GNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--ELHCVG  312 (857)
T ss_pred             hhhhhccchhhhhHHHHHHHHHHHHHc----C----CCeEEEEecHHHhccCCCCccchhHHHHhcchhhcC--CCeEEE
Confidence            431    11223333343333221110    1    2239999999999642        466677777653  466666


Q ss_pred             EecCc-----ccccccccCCceEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHH
Q psy12150        173 ICNYV-----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGG------DMRRAIT  237 (456)
Q Consensus       173 ~~~~~-----~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~----~~~~i~~~~l~~L~~~s~g------dlr~~~~  237 (456)
                      +++..     ....+++.+|++.+.+..|+.++...+++....+    .++.++++++...+..+++      -+..++.
T Consensus       313 aTt~~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~~~~e~~~~v~~~d~a~~~a~~ls~ry~~~~~~pdkAi~  392 (857)
T PRK10865        313 ATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQLPDKAID  392 (857)
T ss_pred             cCCCHHHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHhhhhccCCCCCcCHHHHHHHHHHhhccccCCCCChHHHH
Confidence            66543     2467899999999999999999999988776644    3578889998887776643      4556777


Q ss_pred             HHHHHHHhh
Q psy12150        238 CLQSCARLK  246 (456)
Q Consensus       238 ~L~~~~~~~  246 (456)
                      .++.++...
T Consensus       393 LiD~aaa~~  401 (857)
T PRK10865        393 LIDEAASSI  401 (857)
T ss_pred             HHHHHhccc
Confidence            777766543

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.43  E-value=2.9e-12  Score=140.14  Aligned_cols=201  Identities=14%  Similarity=0.133  Sum_probs=143.6

Q ss_pred             chhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc-----ccceEEeeCCCC--
Q psy12150         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----RERILELNASDD--  107 (456)
Q Consensus        35 w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~-----~~~~~e~n~~~~--  107 (456)
                      +.++-+...++.++|++..++.+.+++.....++++|+||||||||++++.++..+.....     ...+++++....  
T Consensus       169 l~~~a~~~~~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~a  248 (821)
T CHL00095        169 LTKEAIDGNLDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLA  248 (821)
T ss_pred             HHHHHHcCCCCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhc
Confidence            3344456789999999999999999998888778999999999999999999998753221     235667765431  


Q ss_pred             --cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------HHHHHHHHHHhccCcceEEEEecCc
Q psy12150        108 --RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------AQAALRRTMEKETKSTRFCLICNYV  177 (456)
Q Consensus       108 --~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------~~~~Ll~~le~~~~~~~lIl~~~~~  177 (456)
                        ...++..+.+..........         ...|+||||+|.+...        ..+.|..++.+.  .+.+|.+++..
T Consensus       249 g~~~~ge~e~rl~~i~~~~~~~---------~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg--~l~~IgaTt~~  317 (821)
T CHL00095        249 GTKYRGEFEERLKRIFDEIQEN---------NNIILVIDEVHTLIGAGAAEGAIDAANILKPALARG--ELQCIGATTLD  317 (821)
T ss_pred             cCCCccHHHHHHHHHHHHHHhc---------CCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCC--CcEEEEeCCHH
Confidence              11233444444444332111         2239999999987542        345566677653  35666666532


Q ss_pred             -----ccccccccCCceEEEecCCCHHHHHHHHHHHHH----HcCCCCCHHHHHHHHHHcCC------CHHHHHHHHHHH
Q psy12150        178 -----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE----QESVMCDFKALETLVETSGG------DMRRAITCLQSC  242 (456)
Q Consensus       178 -----~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~----~~~~~i~~~~l~~L~~~s~g------dlr~~~~~L~~~  242 (456)
                           ....+++.+|+..+.+..++.++...+++....    ..++.++++++..++..+++      -++.++..|+.+
T Consensus       318 ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~~r~lPdkaidlld~a  397 (821)
T CHL00095        318 EYRKHIEKDPALERRFQPVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRFLPDKAIDLLDEA  397 (821)
T ss_pred             HHHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCccccCchHHHHHHHHH
Confidence                 235688999999999999999998888776543    24667999999999998875      267899999887


Q ss_pred             HHhh
Q psy12150        243 ARLK  246 (456)
Q Consensus       243 ~~~~  246 (456)
                      +...
T Consensus       398 ~a~~  401 (821)
T CHL00095        398 GSRV  401 (821)
T ss_pred             HHHH
Confidence            7644

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.42  E-value=6.4e-12  Score=133.61  Aligned_cols=208  Identities=17%  Similarity=0.178  Sum_probs=138.3

Q ss_pred             cchhccCCCCcccccccHHHHHHHHHHHh-----------cCCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEE
Q psy12150         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLS-----------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (456)
Q Consensus        34 ~w~eky~P~~~~~ivg~~~~~~~l~~~l~-----------~~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e  101 (456)
                      .|.......+|+++.|.+.....+.+.+.           ++..+ +++|+||||+|||++++++++++..     +++.
T Consensus       141 ~~~~~~~~~~~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~-----~f~~  215 (644)
T PRK10733        141 MLTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV-----PFFT  215 (644)
T ss_pred             ccCchhhhCcHHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCC-----CEEE
Confidence            34444556679999998888777665542           12223 4999999999999999999998743     4566


Q ss_pred             eeCCCCc------ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHHHHHH
Q psy12150        102 LNASDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTM  161 (456)
Q Consensus       102 ~n~~~~~------~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~Ll~~l  161 (456)
                      +++++..      +...++..+....    .     ..|+    +|||||+|.+...              ..+.|+..|
T Consensus       216 is~~~~~~~~~g~~~~~~~~~f~~a~----~-----~~P~----IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~m  282 (644)
T PRK10733        216 ISGSDFVEMFVGVGASRVRDMFEQAK----K-----AAPC----IIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEM  282 (644)
T ss_pred             EehHHhHHhhhcccHHHHHHHHHHHH----h-----cCCc----EEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhh
Confidence            6665421      1122333222211    1     1233    9999999998431              233444444


Q ss_pred             Hhc--cCcceEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC----CH
Q psy12150        162 EKE--TKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG----DM  232 (456)
Q Consensus       162 e~~--~~~~~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g----dl  232 (456)
                      +..  ...+++|.++|.+..+.+++.+  |+. .+.|+.|+.++..++++..+++.... .+..+..+++.+.|    |+
T Consensus       283 dg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~-~~~d~~~la~~t~G~sgadl  361 (644)
T PRK10733        283 DGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLA-PDIDAAIIARGTPGFSGADL  361 (644)
T ss_pred             hcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCC-CcCCHHHHHhhCCCCCHHHH
Confidence            433  2356788888999999999885  554 88999999999999999888764332 12235668888877    66


Q ss_pred             HHHHHHHHHHHHhhCCCCCCHHHHHHHh
Q psy12150        233 RRAITCLQSCARLKGGEGIVNEDVLEVT  260 (456)
Q Consensus       233 r~~~~~L~~~~~~~~~~~It~~~v~~~~  260 (456)
                      ..++++....+...+...|+.+++..+.
T Consensus       362 ~~l~~eAa~~a~r~~~~~i~~~d~~~a~  389 (644)
T PRK10733        362 ANLVNEAALFAARGNKRVVSMVEFEKAK  389 (644)
T ss_pred             HHHHHHHHHHHHHcCCCcccHHHHHHHH
Confidence            6666666554443356789999988765

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

Probab=99.42  E-value=7.2e-12  Score=130.26  Aligned_cols=210  Identities=20%  Similarity=0.243  Sum_probs=144.9

Q ss_pred             CCcccccccHHHHHHHHHHHh------------cCCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLS------------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~------------~~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      .+|.++.|.+.....+++.+.            +-+.+ .+|||||||||||.+++++++...     .+++.+..++..
T Consensus       239 v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~-----~~fi~v~~~~l~  313 (494)
T COG0464         239 VTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESR-----SRFISVKGSELL  313 (494)
T ss_pred             cceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCC-----CeEEEeeCHHHh
Confidence            478888888888877776652            12233 399999999999999999999753     366776666432


Q ss_pred             C--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHH--hccCcceEEEE
Q psy12150        109 G--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTME--KETKSTRFCLI  173 (456)
Q Consensus       109 ~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le--~~~~~~~lIl~  173 (456)
                      +  ..+....+......+..     ..||    +||+||+|.+..           .....|+..++  +....+++|.+
T Consensus       314 sk~vGesek~ir~~F~~A~~-----~~p~----iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~a  384 (494)
T COG0464         314 SKWVGESEKNIRELFEKARK-----LAPS----IIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAA  384 (494)
T ss_pred             ccccchHHHHHHHHHHHHHc-----CCCc----EEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEec
Confidence            2  34444455544444332     2344    999999999853           23445565554  33445667888


Q ss_pred             ecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCC-CHHHHHHHHHHHHHhh--
Q psy12150        174 CNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVM-CDFKALETLVETSGG-DMRRAITCLQSCARLK--  246 (456)
Q Consensus       174 ~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~-i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~~~--  246 (456)
                      +|.++.+.+++.+  |+. .+.|++|+..+..++++..+...+.. ..+-.++.+++.+.| .-..+...++.++..+  
T Consensus       385 TN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~ea~~~~~~  464 (494)
T COG0464         385 TNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALR  464 (494)
T ss_pred             CCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHHHHHHHHHH
Confidence            8899999999988  766 89999999999999999998866654 345667778876655 3344455555554443  


Q ss_pred             -C-CCCCCHHHHHHHhCCCCH
Q psy12150        247 -G-GEGIVNEDVLEVTGVIPK  265 (456)
Q Consensus       247 -~-~~~It~~~v~~~~~~~~~  265 (456)
                       . ...||.+|+.++.....+
T Consensus       465 ~~~~~~~~~~~~~~a~~~~~p  485 (494)
T COG0464         465 EARRREVTLDDFLDALKKIKP  485 (494)
T ss_pred             HhccCCccHHHHHHHHHhcCC
Confidence             2 457899998888776543

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=99.41  E-value=5.7e-12  Score=131.04  Aligned_cols=213  Identities=16%  Similarity=0.163  Sum_probs=142.0

Q ss_pred             CCCCcccccccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHH
Q psy12150         40 RPKTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV  117 (456)
Q Consensus        40 ~P~~~~~ivg~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l  117 (456)
                      ...+|++++|....++.+.+.++.-  ...+++|+|++||||+++|++++.....  ...+++.+||..... ..+...+
T Consensus       199 ~~~~f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~s~r--~~~pfv~inca~~~~-~~~e~el  275 (520)
T PRK10820        199 DDSAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRSPR--GKKPFLALNCASIPD-DVVESEL  275 (520)
T ss_pred             ccccccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHhCCC--CCCCeEEeccccCCH-HHHHHHh
Confidence            3458999999988777776665421  2234999999999999999999876432  223788999987432 2222111


Q ss_pred             HHHHHhhccCCCCCCCC----CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-----
Q psy12150        118 KTFAQQTASGFNQDGKP----CPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-----  177 (456)
Q Consensus       118 ~~~~~~~~~~~~~~~~~----~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-----  177 (456)
                      .......+.+ ...+++    .++..+|+|||++.|+...|..|++++++..           ..+.+|++++..     
T Consensus       276 FG~~~~~~~~-~~~~~~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~~l~~l~  354 (520)
T PRK10820        276 FGHAPGAYPN-ALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELV  354 (520)
T ss_pred             cCCCCCCcCC-cccCCCChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCCCHHHHH
Confidence            1100000000 000110    1244589999999999999999999998632           235677776542     


Q ss_pred             --ccccccccCCce--EEEecCCCH--HHHHHH----HHHHHHHcCC---CCCHHHHHHHHHH-cCCCHHHHHHHHHHHH
Q psy12150        178 --SCIIQPLTSRCS--KFRFKPLAE--NTMLTR----LQYICEQESV---MCDFKALETLVET-SGGDMRRAITCLQSCA  243 (456)
Q Consensus       178 --~kl~~~l~~r~~--~i~f~~~~~--~el~~~----l~~~~~~~~~---~i~~~~l~~L~~~-s~gdlr~~~~~L~~~~  243 (456)
                        ..+.+.|..|..  .++++|+.+  +++..+    +...+.+.|.   .+++++++.|..+ ++||+|++.|.++.++
T Consensus       355 ~~g~f~~dL~~rL~~~~i~lPpLreR~~Di~~L~~~fl~~~~~~~g~~~~~ls~~a~~~L~~y~WPGNvreL~nvl~~a~  434 (520)
T PRK10820        355 QKGEFREDLYYRLNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAADLNTVLTRYGWPGNVRQLKNAIYRAL  434 (520)
T ss_pred             HcCCccHHHHhhcCeeEEeCCCcccChhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence              123344556643  677777765  345443    4444555543   6899999999988 7999999999999998


Q ss_pred             HhhCCCCCCHHHH
Q psy12150        244 RLKGGEGIVNEDV  256 (456)
Q Consensus       244 ~~~~~~~It~~~v  256 (456)
                      ..+.+..|+.+++
T Consensus       435 ~~~~~~~i~~~~~  447 (520)
T PRK10820        435 TQLEGYELRPQDI  447 (520)
T ss_pred             HhCCCCcccHHHc
Confidence            8777778998886

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=99.41  E-value=4.8e-12  Score=135.48  Aligned_cols=187  Identities=18%  Similarity=0.228  Sum_probs=125.7

Q ss_pred             cccccHHHHHHHHHHHhc--------CCC-CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH
Q psy12150         46 DVIEQQEVVSVLKKCLSG--------ADL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK  116 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~--------~~~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~  116 (456)
                      .++||+++++.+.+++..        +++ .+++|+||||||||++|+.+++.+..     +++.+|++.......+...
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~-----~~i~id~se~~~~~~~~~L  533 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI-----ELLRFDMSEYMERHTVSRL  533 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCC-----CcEEeechhhcccccHHHH
Confidence            478999999999888763        222 23999999999999999999998843     5667777654332222111


Q ss_pred             HHHHHHhhccCCC--CCCC-----CCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-
Q psy12150        117 VKTFAQQTASGFN--QDGK-----PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-  177 (456)
Q Consensus       117 l~~~~~~~~~~~~--~~~~-----~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-  177 (456)
                      +.    .+....+  ..+.     ...++.||++||++.+.++.++.|+++|++..           .++++|+++|.- 
T Consensus       534 iG----~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~g~  609 (758)
T PRK11034        534 IG----APPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGV  609 (758)
T ss_pred             cC----CCCCcccccccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCcCH
Confidence            11    0000000  0000     00245699999999999999999999998642           367788888721 


Q ss_pred             ------------------------ccccccccCCce-EEEecCCCHHHHHHHHHHHHH-------HcC--CCCCHHHHHH
Q psy12150        178 ------------------------SCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICE-------QES--VMCDFKALET  223 (456)
Q Consensus       178 ------------------------~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~-------~~~--~~i~~~~l~~  223 (456)
                                              ..+.|.+.+|+. ++.|.+++.+++..++...+.       ..|  +.+++++++.
T Consensus       610 ~~~~~~~~g~~~~~~~~~~~~~~~~~f~pefl~Rid~ii~f~~L~~~~l~~I~~~~l~~~~~~l~~~~i~l~~~~~~~~~  689 (758)
T PRK11034        610 RETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQAQLDQKGVSLEVSQEARDW  689 (758)
T ss_pred             HHHhhcccCcccchhhHHHHHHHHHhcCHHHHccCCEEEEcCCCCHHHHHHHHHHHHHHHHHHHHHCCCCceECHHHHHH
Confidence                                    113466778886 899999999999988876554       234  3568999999


Q ss_pred             HHHHcC---CCHHHHHHHHHH
Q psy12150        224 LVETSG---GDMRRAITCLQS  241 (456)
Q Consensus       224 L~~~s~---gdlr~~~~~L~~  241 (456)
                      |++..-   ...|-+.+.+++
T Consensus       690 l~~~~~~~~~GAR~l~r~i~~  710 (758)
T PRK11034        690 LAEKGYDRAMGARPMARVIQD  710 (758)
T ss_pred             HHHhCCCCCCCCchHHHHHHH
Confidence            997641   234555555544

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=99.41  E-value=5.7e-12  Score=134.93  Aligned_cols=212  Identities=15%  Similarity=0.098  Sum_probs=141.8

Q ss_pred             CCcccccccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHH
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~  119 (456)
                      .+|++++|....+..+.+.++..  ...+++|+|++||||+++|+++++....  ...+++.+||..... +.+...+  
T Consensus       322 ~~~~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s~r--~~~pfv~vnc~~~~~-~~~~~el--  396 (638)
T PRK11388        322 HTFDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESER--AAGPYIAVNCQLYPD-EALAEEF--  396 (638)
T ss_pred             ccccceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhCCc--cCCCeEEEECCCCCh-HHHHHHh--
Confidence            37999999988877766665432  2234999999999999999999987543  233789999987432 2222211  


Q ss_pred             HHHhhccCCCCCCCC----CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------
Q psy12150        120 FAQQTASGFNQDGKP----CPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------  177 (456)
Q Consensus       120 ~~~~~~~~~~~~~~~----~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------  177 (456)
                       .... .+....+.+    .++..+|||||++.|+...|..|++++++..           ..+.+|++++..       
T Consensus       397 -fg~~-~~~~~~~~~g~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~~l~~~~~~  474 (638)
T PRK11388        397 -LGSD-RTDSENGRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLAMLVEQ  474 (638)
T ss_pred             -cCCC-CcCccCCCCCceeECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccCCHHHHHhc
Confidence             1100 000001111    1344599999999999999999999998642           135677776642       


Q ss_pred             ccccccccCCce--EEEecCCCH--HHHHHHHHHHHH----HcC--CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhh
Q psy12150        178 SCIIQPLTSRCS--KFRFKPLAE--NTMLTRLQYICE----QES--VMCDFKALETLVETS-GGDMRRAITCLQSCARLK  246 (456)
Q Consensus       178 ~kl~~~l~~r~~--~i~f~~~~~--~el~~~l~~~~~----~~~--~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~  246 (456)
                      ..+.+.|..|..  .+.++|+.+  +++..++...+.    +.+  +.+++++++.|..+. +||+|++.+.++.++..+
T Consensus       475 ~~f~~dL~~~l~~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvreL~~~l~~~~~~~  554 (638)
T PRK11388        475 NRFSRQLYYALHAFEITIPPLRMRREDIPALVNNKLRSLEKRFSTRLKIDDDALARLVSYRWPGNDFELRSVIENLALSS  554 (638)
T ss_pred             CCChHHHhhhhceeEEeCCChhhhhhHHHHHHHHHHHHHHHHhCCCCCcCHHHHHHHHcCCCCChHHHHHHHHHHHHHhC
Confidence            123333444443  567777765  355555554443    222  468999999999886 999999999999988766


Q ss_pred             CCCCCCHHHHHHHh
Q psy12150        247 GGEGIVNEDVLEVT  260 (456)
Q Consensus       247 ~~~~It~~~v~~~~  260 (456)
                      .+..|+.+++...+
T Consensus       555 ~~~~i~~~~lp~~~  568 (638)
T PRK11388        555 DNGRIRLSDLPEHL  568 (638)
T ss_pred             CCCeecHHHCchhh
Confidence            67789888876543

>KOG1514|consensus

Probab=99.40  E-value=5.3e-11  Score=121.48  Aligned_cols=217  Identities=19%  Similarity=0.223  Sum_probs=151.1

Q ss_pred             ccccHHHHHHHHHHHhcCCC----C-eEEEECCCCCcHHHHHHHHHHHhc-----CCccccceEEeeCCCCcChHHHHHH
Q psy12150         47 VIEQQEVVSVLKKCLSGADL----P-HFLFYGPPGTGKTSTMIAACHQLF-----GDMYRERILELNASDDRGIQVIRDK  116 (456)
Q Consensus        47 ivg~~~~~~~l~~~l~~~~~----~-~~Ll~G~~G~GKT~~a~~l~~~l~-----~~~~~~~~~e~n~~~~~~~~~i~~~  116 (456)
                      +.+++.....|..+++..-.    . -++++|.||||||.+++.+.+.+.     ++...+.++++|+-...+...+...
T Consensus       398 LpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~  477 (767)
T KOG1514|consen  398 LPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEK  477 (767)
T ss_pred             ccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHH
Confidence            34566666666666543222    2 399999999999999999998775     2445678999999988887777666


Q ss_pred             HHHHHHh-----------hccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc---CcceEEEEecCc---cc
Q psy12150        117 VKTFAQQ-----------TASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET---KSTRFCLICNYV---SC  179 (456)
Q Consensus       117 l~~~~~~-----------~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~---~~~~lIl~~~~~---~k  179 (456)
                      +-.....           ..+.+. ..+++....||+|||.|.|....|+.|.++++.+.   ..+++|.++|..   .+
T Consensus       478 I~~~lsg~~~~~~~al~~L~~~f~-~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaNTmdlPEr  556 (767)
T KOG1514|consen  478 IWEALSGERVTWDAALEALNFRFT-VPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIANTMDLPER  556 (767)
T ss_pred             HHHhcccCcccHHHHHHHHHHhhc-cCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecccccCHHH
Confidence            5432110           001111 22333455699999999999888988888887654   345666666642   33


Q ss_pred             -ccccccCCc--eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH---cCCCHHHHHHHHHHHHHhhCCC----
Q psy12150        180 -IIQPLTSRC--SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET---SGGDMRRAITCLQSCARLKGGE----  249 (456)
Q Consensus       180 -l~~~l~~r~--~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~---s~gdlr~~~~~L~~~~~~~~~~----  249 (456)
                       +...+.+|.  .++.|.|++.+++..++..+++.. ..|..++++.+++.   ..||.|+++..+..++..+...    
T Consensus       557 ~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~-~~f~~~aielvarkVAavSGDaRraldic~RA~Eia~~~~~~~  635 (767)
T KOG1514|consen  557 LLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGL-DAFENKAIELVARKVAAVSGDARRALDICRRAAEIAEERNVKG  635 (767)
T ss_pred             HhccchhhhccceeeecCCCCHHHHHHHHHHhhcch-hhcchhHHHHHHHHHHhccccHHHHHHHHHHHHHHhhhhcccc
Confidence             334566664  499999999999999999888754 46788999888875   4799999999999998887422    


Q ss_pred             ------CCCHHHHHHHhCCCCH
Q psy12150        250 ------GIVNEDVLEVTGVIPK  265 (456)
Q Consensus       250 ------~It~~~v~~~~~~~~~  265 (456)
                            .|+.-+|.+++.....
T Consensus       636 k~~~~q~v~~~~v~~Ai~em~~  657 (767)
T KOG1514|consen  636 KLAVSQLVGILHVMEAINEMLA  657 (767)
T ss_pred             cccccceeehHHHHHHHHHHhh
Confidence                  2455555555544433

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.39  E-value=1.3e-11  Score=135.20  Aligned_cols=191  Identities=19%  Similarity=0.267  Sum_probs=128.9

Q ss_pred             ccccccHHHHHHHHHHHhcC--------CCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHH
Q psy12150         45 DDVIEQQEVVSVLKKCLSGA--------DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~~--------~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~  115 (456)
                      +.++||+++++.+.+.+...        ++.+ ++|+||+|+|||++|+++++.+.+...  .++.++.+.......+..
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~--~~~~~d~s~~~~~~~~~~  586 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSED--AMIRLDMSEYMEKHTVSK  586 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCcc--ceEEEEchhccccccHHH
Confidence            46789999999998887532        2223 899999999999999999999876432  567777765433222211


Q ss_pred             HHHHHHHhhccCCC--CCCC-----CCCCcEEEEEcCCCCccHHHHHHHHHHHHhc-----------cCcceEEEEecCc
Q psy12150        116 KVKTFAQQTASGFN--QDGK-----PCPPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRFCLICNYV  177 (456)
Q Consensus       116 ~l~~~~~~~~~~~~--~~~~-----~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~-----------~~~~~lIl~~~~~  177 (456)
                      .+.    .+....+  ..+.     ...+++||++||++.+.++.++.|++.++++           ..+++||+++|..
T Consensus       587 l~g----~~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~g  662 (821)
T CHL00095        587 LIG----SPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNLG  662 (821)
T ss_pred             hcC----CCCcccCcCccchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeCCcc
Confidence            110    0000000  0000     0025679999999999999999999999874           2568888887731


Q ss_pred             cc-------------------------------------ccccccCCc-eEEEecCCCHHHHHHHHHHHHHH-------c
Q psy12150        178 SC-------------------------------------IIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQ-------E  212 (456)
Q Consensus       178 ~k-------------------------------------l~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~-------~  212 (456)
                      ..                                     +.|.+.+|+ .++.|.|++.+++.+++...+.+       .
T Consensus       663 ~~~i~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~peflnRid~ii~F~pL~~~~l~~Iv~~~l~~l~~rl~~~  742 (821)
T CHL00095        663 SKVIETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRPEFLNRLDEIIVFRQLTKNDVWEIAEIMLKNLFKRLNEQ  742 (821)
T ss_pred             hHHHHhhccccCCcccccccccccHHHHHHHHHHHHHHhcCHHHhccCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHC
Confidence            10                                     124567888 68999999999999988776653       2


Q ss_pred             C--CCCCHHHHHHHHHHc---CCCHHHHHHHHHH
Q psy12150        213 S--VMCDFKALETLVETS---GGDMRRAITCLQS  241 (456)
Q Consensus       213 ~--~~i~~~~l~~L~~~s---~gdlr~~~~~L~~  241 (456)
                      |  +.+++++.+.|++..   ..-.|-+.+.+++
T Consensus       743 ~i~l~~~~~~~~~La~~~~~~~~GAR~l~r~i~~  776 (821)
T CHL00095        743 GIQLEVTERIKTLLIEEGYNPLYGARPLRRAIMR  776 (821)
T ss_pred             CcEEEECHHHHHHHHHhcCCCCCChhhHHHHHHH
Confidence            3  467899999999863   1234555555544

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.37  E-value=6.8e-12  Score=140.11  Aligned_cols=128  Identities=9%  Similarity=0.104  Sum_probs=89.1

Q ss_pred             CCCCCcEEEEEcCCCCccHH-----HHHHHHHHHHhc-----cCcceEEEEecCcccccccccC--Cce-EEEecCCCHH
Q psy12150        133 KPCPPFKIVILDEADSMTHA-----AQAALRRTMEKE-----TKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAEN  199 (456)
Q Consensus       133 ~~~~~~~iviIDE~d~l~~~-----~~~~Ll~~le~~-----~~~~~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~  199 (456)
                      .||    ||+|||+|.+...     ....|+..|...     ...+++|.+||.+..++++|.+  |+. .|.++.|+..
T Consensus      1732 SPC----IIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~~s~~~VIVIAATNRPD~LDPALLRPGRFDR~I~Ir~Pd~p 1807 (2281)
T CHL00206       1732 SPC----IIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILVIASTHIPQKVDPALIAPNKLNTCIKIRRLLIP 1807 (2281)
T ss_pred             CCe----EEEEEchhhcCCCccceehHHHHHHHhccccccCCCCCEEEEEeCCCcccCCHhHcCCCCCCeEEEeCCCCch
Confidence            466    9999999999754     245666777532     3456777888889999999987  444 7888888887


Q ss_pred             HHHHHHHHHHHHcCCCCCHH--HHHHHHHHcCC-CHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCCC
Q psy12150        200 TMLTRLQYICEQESVMCDFK--ALETLVETSGG-DMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVIP  264 (456)
Q Consensus       200 el~~~l~~~~~~~~~~i~~~--~l~~L~~~s~g-dlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~~~~  264 (456)
                      +..+.+.......|+.+.++  .++.+++.+.| ..+.+.+.+..++..+   +...|+.++++.++.+..
T Consensus      1808 ~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADLanLvNEAaliAirq~ks~Id~~~I~~Al~Rq~ 1878 (2281)
T CHL00206       1808 QQRKHFFTLSYTRGFHLEKKMFHTNGFGSITMGSNARDLVALTNEALSISITQKKSIIDTNTIRSALHRQT 1878 (2281)
T ss_pred             hHHHHHHHHHhhcCCCCCcccccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHHHH
Confidence            77777765555456666543  47889999876 3444444444454444   567899999988876543

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

Probab=99.37  E-value=1.8e-11  Score=132.56  Aligned_cols=180  Identities=18%  Similarity=0.236  Sum_probs=126.4

Q ss_pred             cccccHHHHHHHHHHHhcC--------CCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH
Q psy12150         46 DVIEQQEVVSVLKKCLSGA--------DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK  116 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~--------~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~  116 (456)
                      .++||+++++.+.+.+...        ++. +++|+||+|||||++|+++++.+..     .++.++++.......+...
T Consensus       455 ~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~-----~~~~~d~se~~~~~~~~~l  529 (731)
T TIGR02639       455 KIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGV-----HLERFDMSEYMEKHTVSRL  529 (731)
T ss_pred             ceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcC-----CeEEEeCchhhhcccHHHH
Confidence            5789999999988887632        233 3999999999999999999998843     4566666543221111111


Q ss_pred             ---------------HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc-----------cCcceE
Q psy12150        117 ---------------VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRF  170 (456)
Q Consensus       117 ---------------l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~-----------~~~~~l  170 (456)
                                     +......            .++.||++||++.+.++.++.|++++++.           -.++++
T Consensus       530 ig~~~gyvg~~~~~~l~~~~~~------------~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~ii  597 (731)
T TIGR02639       530 IGAPPGYVGFEQGGLLTEAVRK------------HPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVIL  597 (731)
T ss_pred             hcCCCCCcccchhhHHHHHHHh------------CCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEE
Confidence                           1111111            24569999999999999999999999864           135778


Q ss_pred             EEEecCcc-------------------------cccccccCCce-EEEecCCCHHHHHHHHHHHHHH-------cC--CC
Q psy12150        171 CLICNYVS-------------------------CIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ-------ES--VM  215 (456)
Q Consensus       171 Il~~~~~~-------------------------kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~-------~~--~~  215 (456)
                      |+++|...                         .+.+.+.+|+. ++.|.|++.+++.+++...+++       .|  +.
T Consensus       598 i~Tsn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L~~l~~~l~~~~~~l~  677 (731)
T TIGR02639       598 IMTSNAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKFVDELSKQLNEKNIKLE  677 (731)
T ss_pred             EECCCcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEE
Confidence            88876321                         13456778875 8999999999999998877653       22  56


Q ss_pred             CCHHHHHHHHHHc---CCCHHHHHHHHHHH
Q psy12150        216 CDFKALETLVETS---GGDMRRAITCLQSC  242 (456)
Q Consensus       216 i~~~~l~~L~~~s---~gdlr~~~~~L~~~  242 (456)
                      +++++++.|++..   ....|.+.+.+++.
T Consensus       678 i~~~a~~~La~~~~~~~~GaR~l~r~i~~~  707 (731)
T TIGR02639       678 LTDDAKKYLAEKGYDEEFGARPLARVIQEE  707 (731)
T ss_pred             eCHHHHHHHHHhCCCcccCchHHHHHHHHH
Confidence            7999999999864   23456666666543

>KOG0728|consensus

Probab=99.37  E-value=1.7e-11  Score=110.39  Aligned_cols=212  Identities=20%  Similarity=0.226  Sum_probs=130.4

Q ss_pred             hhccCCCCcccccccHHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEe
Q psy12150         36 VEKYRPKTIDDVIEQQEVVSVLKKCLSG-------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL  102 (456)
Q Consensus        36 ~eky~P~~~~~ivg~~~~~~~l~~~l~~-------------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~  102 (456)
                      ++|---.+++-+-|.+..+.++++.++-             ..+..+|+|||||+|||.++++++....+     .++.+
T Consensus       138 VeKvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c-----~firv  212 (404)
T KOG0728|consen  138 VEKVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDC-----TFIRV  212 (404)
T ss_pred             hhhCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcce-----EEEEe
Confidence            4443333444444578888888887741             12334999999999999999999987533     56666


Q ss_pred             eCCCCc--ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHh-----c
Q psy12150        103 NASDDR--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK-----E  164 (456)
Q Consensus       103 n~~~~~--~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~-----~  164 (456)
                      +++...  -.++=...+++++-.+..     ..|+    +||+||+|.+..           +.|...++.++.     .
T Consensus       213 sgselvqk~igegsrmvrelfvmare-----haps----iifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfea  283 (404)
T KOG0728|consen  213 SGSELVQKYIGEGSRMVRELFVMARE-----HAPS----IIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEA  283 (404)
T ss_pred             chHHHHHHHhhhhHHHHHHHHHHHHh-----cCCc----eEeeecccccccccccCCCCccHHHHHHHHHHHHhcccccc
Confidence            655410  000001122222222211     1222    999999999843           345555555543     3


Q ss_pred             cCcceEEEEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHH
Q psy12150        165 TKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQ  240 (456)
Q Consensus       165 ~~~~~lIl~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~  240 (456)
                      ..+..+|+++|...-+.+++.+.+.   .++|+||+++...++|+-..++.+.. .--.+..+++.-+| +-..+...|-
T Consensus       284 tknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl~-rgi~l~kiaekm~gasgaevk~vct  362 (404)
T KOG0728|consen  284 TKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLT-RGINLRKIAEKMPGASGAEVKGVCT  362 (404)
T ss_pred             ccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhchh-cccCHHHHHHhCCCCccchhhhhhh
Confidence            4567899999998888899887765   79999999999999998777654321 01124445554433 2233344444


Q ss_pred             HHHHhh---CCCCCCHHHHHHHhCC
Q psy12150        241 SCARLK---GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       241 ~~~~~~---~~~~It~~~v~~~~~~  262 (456)
                      .+..|+   ..-.+|.+|++-+++.
T Consensus       363 eagm~alrerrvhvtqedfemav~k  387 (404)
T KOG0728|consen  363 EAGMYALRERRVHVTQEDFEMAVAK  387 (404)
T ss_pred             hhhHHHHHHhhccccHHHHHHHHHH
Confidence            455555   2446888888766653

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.37  E-value=2.4e-11  Score=132.85  Aligned_cols=194  Identities=20%  Similarity=0.261  Sum_probs=130.0

Q ss_pred             cccccccHHHHHHHHHHHhcC--------CC-CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHH
Q psy12150         44 IDDVIEQQEVVSVLKKCLSGA--------DL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIR  114 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~~~--------~~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~  114 (456)
                      .+.++|++.++..+...+...        ++ ..++|+||+|+|||++|+++++.+.+...  .++.++++.........
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~--~~i~id~se~~~~~~~~  644 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDD--AMVRIDMSEFMEKHSVS  644 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCC--cEEEEEhHHhhhhhhHH
Confidence            457899999999988887632        12 23999999999999999999998865322  46777776532211111


Q ss_pred             HHHHHHHHhhccCCCCC-CC------CCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecC
Q psy12150        115 DKVKTFAQQTASGFNQD-GK------PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNY  176 (456)
Q Consensus       115 ~~l~~~~~~~~~~~~~~-~~------~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~  176 (456)
                      ..+    ..+....+.. +.      ...++.+|++||++.+.+..++.|++++++..           .++++|+++|.
T Consensus       645 ~Li----G~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN~  720 (857)
T PRK10865        645 RLV----GAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNL  720 (857)
T ss_pred             HHh----CCCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeCCc
Confidence            111    0000000000 00      00134599999999999999999999998642           34668888874


Q ss_pred             c-------------------------ccccccccCCc-eEEEecCCCHHHHHHHHHHHHHH-------cC--CCCCHHHH
Q psy12150        177 V-------------------------SCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQ-------ES--VMCDFKAL  221 (456)
Q Consensus       177 ~-------------------------~kl~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~-------~~--~~i~~~~l  221 (456)
                      .                         ..+.+.|.+|+ ..+.|.|++.+++..++...+.+       .+  +.++++++
T Consensus       721 g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PELlnRld~iivF~PL~~edl~~Iv~~~L~~l~~rl~~~gi~l~is~~al  800 (857)
T PRK10865        721 GSDLIQERFGELDYAHMKELVLGVVSHNFRPEFINRIDEVVVFHPLGEQHIASIAQIQLQRLYKRLEERGYEIHISDEAL  800 (857)
T ss_pred             chHHHHHhccccchHHHHHHHHHHHcccccHHHHHhCCeeEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCcCcCCHHHH
Confidence            1                         11345678888 68999999999999888766643       23  45799999


Q ss_pred             HHHHHHcC---CCHHHHHHHHHHHH
Q psy12150        222 ETLVETSG---GDMRRAITCLQSCA  243 (456)
Q Consensus       222 ~~L~~~s~---gdlr~~~~~L~~~~  243 (456)
                      +.|++..-   -..|.+.+.+++.+
T Consensus       801 ~~L~~~gy~~~~GARpL~r~I~~~i  825 (857)
T PRK10865        801 KLLSENGYDPVYGARPLKRAIQQQI  825 (857)
T ss_pred             HHHHHcCCCccCChHHHHHHHHHHH
Confidence            99998642   24666666666543

>KOG0652|consensus

Probab=99.37  E-value=1.1e-11  Score=112.34  Aligned_cols=200  Identities=21%  Similarity=0.293  Sum_probs=123.2

Q ss_pred             CcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcccc---ceEEeeCCC
Q psy12150         43 TIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRE---RILELNASD  106 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~---~~~e~n~~~  106 (456)
                      +++++-|.+..+++|.+++-            +-++|. +|+|||||+|||.++++++.+.+..+...   ..+.+--  
T Consensus       169 ~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLVQMfI--  246 (424)
T KOG0652|consen  169 QYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLVQMFI--  246 (424)
T ss_pred             cccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHHhhhh--
Confidence            67899999999999887762            223343 99999999999999999998765422110   1111111  


Q ss_pred             CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHh-----ccCcceE
Q psy12150        107 DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK-----ETKSTRF  170 (456)
Q Consensus       107 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~-----~~~~~~l  170 (456)
                      ..+...    +++....+     ....|+    +|||||+|.+..           +.|...++.+..     +...+.+
T Consensus       247 GdGAkL----VRDAFaLA-----KEkaP~----IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKv  313 (424)
T KOG0652|consen  247 GDGAKL----VRDAFALA-----KEKAPT----IIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKV  313 (424)
T ss_pred             cchHHH----HHHHHHHh-----hccCCe----EEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEE
Confidence            111222    22222221     222333    999999998843           245555555543     2345668


Q ss_pred             EEEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHH---HH
Q psy12150        171 CLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGD-MRRAITCLQS---CA  243 (456)
Q Consensus       171 Il~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gd-lr~~~~~L~~---~~  243 (456)
                      |.++|...-+.|++.+.+.   .++|+-|+++...++++-+.++.++. ++--.+.|++.+.+. -.++...+-.   ++
T Consensus       314 iAATNRvDiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~-~DvNfeELaRsTddFNGAQcKAVcVEAGMiA  392 (424)
T KOG0652|consen  314 IAATNRVDILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVS-DDVNFEELARSTDDFNGAQCKAVCVEAGMIA  392 (424)
T ss_pred             EeecccccccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCC-CCCCHHHHhhcccccCchhheeeehhhhHHH
Confidence            8888888888898876665   79999999999999998887765543 333467788877542 2222222222   22


Q ss_pred             HhhCCCCCCHHHHHH
Q psy12150        244 RLKGGEGIVNEDVLE  258 (456)
Q Consensus       244 ~~~~~~~It~~~v~~  258 (456)
                      ...+...|+.+|..+
T Consensus       393 LRr~atev~heDfme  407 (424)
T KOG0652|consen  393 LRRGATEVTHEDFME  407 (424)
T ss_pred             HhcccccccHHHHHH
Confidence            222445666666544

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.37  E-value=2.3e-11  Score=133.54  Aligned_cols=194  Identities=19%  Similarity=0.266  Sum_probs=135.0

Q ss_pred             ccccccHHHHHHHHHHHhcC--------CCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHH
Q psy12150         45 DDVIEQQEVVSVLKKCLSGA--------DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~~--------~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~  115 (456)
                      +.++||+.+++.+...+...        ++.+ ++|+||+|+|||++|+++++.+.+...  .++.+|++.......+..
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~--~~i~~d~s~~~~~~~~~~  642 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDED--AMVRIDMSEYMEKHSVAR  642 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCC--cEEEEechhhcccchHHH
Confidence            46899999999998888642        2223 999999999999999999999876433  677777776433222211


Q ss_pred             HHHHHHHhhccCCCC--CCC-----CCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc
Q psy12150        116 KVKTFAQQTASGFNQ--DGK-----PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV  177 (456)
Q Consensus       116 ~l~~~~~~~~~~~~~--~~~-----~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~  177 (456)
                      .+    ..+....+.  .+.     ...++.||++||++.+.++.++.|++++++..           .++++|+++|-.
T Consensus       643 l~----g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn~g  718 (852)
T TIGR03346       643 LI----GAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNLG  718 (852)
T ss_pred             hc----CCCCCccCcccccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCCcc
Confidence            11    000000000  000     00245699999999999999999999998652           467788888741


Q ss_pred             cc-------------------------ccccccCCce-EEEecCCCHHHHHHHHHHHHH-------HcC--CCCCHHHHH
Q psy12150        178 SC-------------------------IIQPLTSRCS-KFRFKPLAENTMLTRLQYICE-------QES--VMCDFKALE  222 (456)
Q Consensus       178 ~k-------------------------l~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~-------~~~--~~i~~~~l~  222 (456)
                      ..                         +.+.|..|+. ++.|.|++.+++.+++...+.       ..+  +.+++++++
T Consensus       719 ~~~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~~Rid~IivF~PL~~e~l~~I~~l~L~~l~~~l~~~~~~l~i~~~a~~  798 (852)
T TIGR03346       719 SQFIQELAGGDDYEEMREAVMEVLRAHFRPEFLNRIDEIVVFHPLGREQIARIVEIQLGRLRKRLAERKITLELSDAALD  798 (852)
T ss_pred             hHhHhhhcccccHHHHHHHHHHHHHhhcCHHHhcCcCeEEecCCcCHHHHHHHHHHHHHHHHHHHHHCCCeecCCHHHHH
Confidence            11                         2345667774 899999999999888776554       222  568999999


Q ss_pred             HHHHHc---CCCHHHHHHHHHHHHH
Q psy12150        223 TLVETS---GGDMRRAITCLQSCAR  244 (456)
Q Consensus       223 ~L~~~s---~gdlr~~~~~L~~~~~  244 (456)
                      .|++..   .++.|.+.+.+++...
T Consensus       799 ~L~~~~~~~~~gaR~L~~~i~~~i~  823 (852)
T TIGR03346       799 FLAEAGYDPVYGARPLKRAIQREIE  823 (852)
T ss_pred             HHHHhCCCCCCCchhHHHHHHHHHH
Confidence            999873   5889999999887654

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.

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=99.37  E-value=1.4e-11  Score=121.35  Aligned_cols=209  Identities=19%  Similarity=0.159  Sum_probs=138.7

Q ss_pred             CcccccccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHH
Q psy12150         43 TIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~  120 (456)
                      .+.+|+|+...+..+.+.++.=  ..-.+||.|++||||..+|++|++.-..  ..-+++.+||.... ...+...+...
T Consensus       221 ~~~~iIG~S~am~~ll~~i~~VA~Sd~tVLi~GETGtGKElvAraIH~~S~R--~~kPfV~~NCAAlP-esLlESELFGH  297 (550)
T COG3604         221 EVGGIIGRSPAMRQLLKEIEVVAKSDSTVLIRGETGTGKELVARAIHQLSPR--RDKPFVKLNCAALP-ESLLESELFGH  297 (550)
T ss_pred             ccccceecCHHHHHHHHHHHHHhcCCCeEEEecCCCccHHHHHHHHHhhCcc--cCCCceeeeccccc-hHHHHHHHhcc
Confidence            4678999999998888777532  1123999999999999999999986433  23478999998632 22222223222


Q ss_pred             HHhhccCCCCCCCC----CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------c
Q psy12150        121 AQQTASGFNQDGKP----CPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------S  178 (456)
Q Consensus       121 ~~~~~~~~~~~~~~----~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~  178 (456)
                      ...++.+- ...++    .++...+|+||+..|+.+.|..|++.|++..           ..+++|.+||..       .
T Consensus       298 eKGAFTGA-~~~r~GrFElAdGGTLFLDEIGelPL~lQaKLLRvLQegEieRvG~~r~ikVDVRiIAATNRDL~~~V~~G  376 (550)
T COG3604         298 EKGAFTGA-INTRRGRFELADGGTLFLDEIGELPLALQAKLLRVLQEGEIERVGGDRTIKVDVRVIAATNRDLEEMVRDG  376 (550)
T ss_pred             cccccccc-hhccCcceeecCCCeEechhhccCCHHHHHHHHHHHhhcceeecCCCceeEEEEEEEeccchhHHHHHHcC
Confidence            22222221 11111    1466699999999999999999999998642           347788888842       2


Q ss_pred             cccccccCCceEEEe--cCCCH--HH----HHHHHHHHHHHcCC---CCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhh
Q psy12150        179 CIIQPLTSRCSKFRF--KPLAE--NT----MLTRLQYICEQESV---MCDFKALETLVET-SGGDMRRAITCLQSCARLK  246 (456)
Q Consensus       179 kl~~~l~~r~~~i~f--~~~~~--~e----l~~~l~~~~~~~~~---~i~~~~l~~L~~~-s~gdlr~~~~~L~~~~~~~  246 (456)
                      ++-..|.-|..++.+  +|+-+  ++    ...++++...+.|.   .+++++++.|..+ .+||+|++.|.++.++..+
T Consensus       377 ~FRaDLYyRLsV~Pl~lPPLRER~~DIplLA~~Fle~~~~~~gr~~l~ls~~Al~~L~~y~wPGNVRELen~veRavlla  456 (550)
T COG3604         377 EFRADLYYRLSVFPLELPPLRERPEDIPLLAGYFLEKFRRRLGRAILSLSAEALELLSSYEWPGNVRELENVVERAVLLA  456 (550)
T ss_pred             cchhhhhhcccccccCCCCcccCCccHHHHHHHHHHHHHHhcCCcccccCHHHHHHHHcCCCCCcHHHHHHHHHHHHHHh
Confidence            233334444444333  33321  22    23445555555554   6899999999986 4999999999999999987


Q ss_pred             CCCCCCHHHH
Q psy12150        247 GGEGIVNEDV  256 (456)
Q Consensus       247 ~~~~It~~~v  256 (456)
                       ++.++..++
T Consensus       457 -~~~~~~~d~  465 (550)
T COG3604         457 -GRLTRRGDL  465 (550)
T ss_pred             -cccCCCcce
Confidence             566665553

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

Probab=99.36  E-value=3.9e-12  Score=130.13  Aligned_cols=229  Identities=20%  Similarity=0.242  Sum_probs=148.3

Q ss_pred             CCCCcchhccCCC----C-----cccccccHHHHHHHHHHHhc----CCC--CeEEEECCCCCcHHHHHHHHHHHhcCCc
Q psy12150         30 NKPVPWVEKYRPK----T-----IDDVIEQQEVVSVLKKCLSG----ADL--PHFLFYGPPGTGKTSTMIAACHQLFGDM   94 (456)
Q Consensus        30 ~~~~~w~eky~P~----~-----~~~ivg~~~~~~~l~~~l~~----~~~--~~~Ll~G~~G~GKT~~a~~l~~~l~~~~   94 (456)
                      --+.||..+-.-.    .     =.+-.|.+.+++++.+++.-    ...  |-++|+||||+|||++++.+|+.++.+ 
T Consensus       299 ll~lPW~~~sk~~~Dl~~a~~iLd~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rk-  377 (782)
T COG0466         299 LLDLPWGKRSKDKLDLKKAEKILDKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRK-  377 (782)
T ss_pred             HHhCCCccccchhhhHHHHHHHhcccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCC-
Confidence            4568997654321    1     12557888999998888742    122  339999999999999999999999774 


Q ss_pred             cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCC-CCCCCCcEEEEEcCCCCccHHH----HHHHHHHHH-------
Q psy12150         95 YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQD-GKPCPPFKIVILDEADSMTHAA----QAALRRTME-------  162 (456)
Q Consensus        95 ~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~-~~~~~~~~iviIDE~d~l~~~~----~~~Ll~~le-------  162 (456)
                          |+.++....+...+++..-+++....+...-.. .+......++++||+|.|..+.    ..+|++.|+       
T Consensus       378 ----fvR~sLGGvrDEAEIRGHRRTYIGamPGrIiQ~mkka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F  453 (782)
T COG0466         378 ----FVRISLGGVRDEAEIRGHRRTYIGAMPGKIIQGMKKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTF  453 (782)
T ss_pred             ----EEEEecCccccHHHhccccccccccCChHHHHHHHHhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCch
Confidence                555555444444444332222211100000000 0000112399999999997542    356666653       


Q ss_pred             ------hc--cCcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHH-----HHcC-----CCCCHHHHHHH
Q psy12150        163 ------KE--TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYIC-----EQES-----VMCDFKALETL  224 (456)
Q Consensus       163 ------~~--~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~-----~~~~-----~~i~~~~l~~L  224 (456)
                            -+  -..+.||.++|....+..+|..|..++++..++++|-..+.++++     +..|     +.++++++..|
T Consensus       454 ~DhYLev~yDLS~VmFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~LiPk~~~~~gL~~~el~i~d~ai~~i  533 (782)
T COG0466         454 SDHYLEVPYDLSKVMFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEAIKDI  533 (782)
T ss_pred             hhccccCccchhheEEEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhcchHHHHHcCCCccceeecHHHHHHH
Confidence                  11  135789999999999999999999999999999999888776653     3333     56899999998


Q ss_pred             HHHc--CCCHHHHHHHHHHHHHhh-------C-CC--CCCHHHHHHHhCCC
Q psy12150        225 VETS--GGDMRRAITCLQSCARLK-------G-GE--GIVNEDVLEVTGVI  263 (456)
Q Consensus       225 ~~~s--~gdlr~~~~~L~~~~~~~-------~-~~--~It~~~v~~~~~~~  263 (456)
                      ++..  ..-+|.+-+.+.+++.-+       . ..  .|+..++.+.++..
T Consensus       534 I~~YTREAGVR~LeR~i~ki~RK~~~~i~~~~~k~~~~i~~~~l~~yLG~~  584 (782)
T COG0466         534 IRYYTREAGVRNLEREIAKICRKAAKKILLKKEKSIVKIDEKNLKKYLGVP  584 (782)
T ss_pred             HHHHhHhhhhhHHHHHHHHHHHHHHHHHHhcCcccceeeCHHHHHHHhCCc
Confidence            8754  334777777776655432       1 11  47777888887754

>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=99.36  E-value=4.9e-12  Score=107.08  Aligned_cols=112  Identities=23%  Similarity=0.280  Sum_probs=80.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc--ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA  146 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~--~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~  146 (456)
                      ++|+||||+|||++++.+++.+.     .+++++++....  ........+..+........    .    ..+|+|||+
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~-----~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~----~----~~vl~iDe~   67 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG-----FPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSA----K----PCVLFIDEI   67 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT-----SEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTS----T----SEEEEEETG
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc-----cccccccccccccccccccccccccccccccccc----c----ceeeeeccc
Confidence            68999999999999999999974     367788877643  12223333333333322110    1    239999999


Q ss_pred             CCccHHH-----------HHHHHHHHHhccC---cceEEEEecCccccccccc-CCce-EEEe
Q psy12150        147 DSMTHAA-----------QAALRRTMEKETK---STRFCLICNYVSCIIQPLT-SRCS-KFRF  193 (456)
Q Consensus       147 d~l~~~~-----------~~~Ll~~le~~~~---~~~lIl~~~~~~kl~~~l~-~r~~-~i~f  193 (456)
                      |.+....           .+.|+..+++...   .+++|+++|..+++.+++. +|+. .++|
T Consensus        68 d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i~~~l~~~rf~~~i~~  130 (132)
T PF00004_consen   68 DKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPDKIDPALLRSRFDRRIEF  130 (132)
T ss_dssp             GGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGGGSCHHHHSTTSEEEEEE
T ss_pred             hhcccccccccccccccccceeeecccccccccccceeEEeeCChhhCCHhHHhCCCcEEEEc
Confidence            9998765           6778888887665   4789999999999999999 8887 4554

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 ....

>KOG0726|consensus

Probab=99.35  E-value=4e-12  Score=116.82  Aligned_cols=206  Identities=22%  Similarity=0.299  Sum_probs=135.1

Q ss_pred             hhccCCCCcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEe
Q psy12150         36 VEKYRPKTIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL  102 (456)
Q Consensus        36 ~eky~P~~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~  102 (456)
                      .+|--..++.++-|.+..++++++.++            +-.+|. +++||+||+|||.+|++++++....+.     .+
T Consensus       176 ~eKaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFl-----Rv  250 (440)
T KOG0726|consen  176 VEKAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFL-----RV  250 (440)
T ss_pred             cccCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhh-----hh
Confidence            445444689999999999999999874            223343 999999999999999999998654332     22


Q ss_pred             eCCC------CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHh--
Q psy12150        103 NASD------DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK--  163 (456)
Q Consensus       103 n~~~------~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~--  163 (456)
                      -+++      ..+...+++.+.-....         .|+    ||||||+|.+..           +.|..++++|+.  
T Consensus       251 vGseLiQkylGdGpklvRqlF~vA~e~---------apS----IvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQld  317 (440)
T KOG0726|consen  251 VGSELIQKYLGDGPKLVRELFRVAEEH---------APS----IVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLD  317 (440)
T ss_pred             hhHHHHHHHhccchHHHHHHHHHHHhc---------CCc----eEEeehhhhhccccccCCCccHHHHHHHHHHHHHhcc
Confidence            2221      12233333333222211         122    999999999843           245566666653  


Q ss_pred             ---ccCcceEEEEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHH----HHcCCCH
Q psy12150        164 ---ETKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKA-LETLV----ETSGGDM  232 (456)
Q Consensus       164 ---~~~~~~lIl~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~-l~~L~----~~s~gdl  232 (456)
                         ....+.+|+++|....+.|+|.+.+.   .++|+.|++..-+.++.-+-.  +..+.+++ ++.++    ..++.|+
T Consensus       318 GFdsrgDvKvimATnrie~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs--~Mtl~~dVnle~li~~kddlSGAdI  395 (440)
T KOG0726|consen  318 GFDSRGDVKVIMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTS--RMTLAEDVNLEELIMTKDDLSGADI  395 (440)
T ss_pred             CccccCCeEEEEecccccccCHhhcCCCccccccccCCCchhhhceeEEEeec--ccchhccccHHHHhhcccccccccH
Confidence               23457799999999999999987765   799999998887776654332  23333222 33333    3467787


Q ss_pred             HHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy12150        233 RRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (456)
Q Consensus       233 r~~~~~L~~~~~~~~~~~It~~~v~~~~~  261 (456)
                      ..+..+.-.++....+..++.+|+.....
T Consensus       396 kAictEaGllAlRerRm~vt~~DF~ka~e  424 (440)
T KOG0726|consen  396 KAICTEAGLLALRERRMKVTMEDFKKAKE  424 (440)
T ss_pred             HHHHHHHhHHHHHHHHhhccHHHHHHHHH
Confidence            77766665555544566788888876543

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.35  E-value=4e-11  Score=116.94  Aligned_cols=226  Identities=15%  Similarity=0.190  Sum_probs=135.5

Q ss_pred             hccCCC-CcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCc-cc-cceEEeeCCC-------
Q psy12150         37 EKYRPK-TIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-YR-ERILELNASD-------  106 (456)
Q Consensus        37 eky~P~-~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-~~-~~~~e~n~~~-------  106 (456)
                      ++-+|. .|.+++||++.+..|...+.+.+..+++|.|++|||||++++.+++-+.... .. .++. .+...       
T Consensus         8 ~~~~~~~pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~-~~p~~p~~~~~~   86 (350)
T CHL00081          8 KKERPVFPFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFN-SHPSDPELMSDE   86 (350)
T ss_pred             hccCCCCCHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCC-CCCCChhhhchh
Confidence            333444 7999999999999999998887777799999999999999999988764211 00 0010 00000       


Q ss_pred             -------------------------CcChHHHHHHH--HHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHH
Q psy12150        107 -------------------------DRGIQVIRDKV--KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRR  159 (456)
Q Consensus       107 -------------------------~~~~~~i~~~l--~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~  159 (456)
                                               ....+.+...+  ............+.--..++..++++||++.+++..|..|++
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL~~~~Q~~LLe  166 (350)
T CHL00081         87 VREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDDHLVDILLD  166 (350)
T ss_pred             hhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhCCHHHHHHHHH
Confidence                                     00000000000  000000000000000001355699999999999999999999


Q ss_pred             HHHhcc-----------CcceEEEEe--cCc-ccccccccCCce-EEEecCCCH-HHHHHHHHHHHH-------------
Q psy12150        160 TMEKET-----------KSTRFCLIC--NYV-SCIIQPLTSRCS-KFRFKPLAE-NTMLTRLQYICE-------------  210 (456)
Q Consensus       160 ~le~~~-----------~~~~lIl~~--~~~-~kl~~~l~~r~~-~i~f~~~~~-~el~~~l~~~~~-------------  210 (456)
                      .|++..           ....|++++  |.. ..+.+++..|+. .+.+..++. ++..++++....             
T Consensus       167 am~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~LldRf~l~i~l~~~~~~~~e~~il~~~~~~~~~~~~~~~~~~  246 (350)
T CHL00081        167 SAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGMHAEIRTVKDPELRVKIVEQRTSFDKNPQEFREKYE  246 (350)
T ss_pred             HHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHHHhCceeecCCCCChHHHHHHHHhhhccccChhhhhhhhc
Confidence            997621           012233333  322 246677778876 677777763 444444443211             


Q ss_pred             ----------------HcCCCCCHHHHHHHHHHc---C-CCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCC
Q psy12150        211 ----------------QESVMCDFKALETLVETS---G-GDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       211 ----------------~~~~~i~~~~l~~L~~~s---~-gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~~~  263 (456)
                                      -..+.++++.++++++.+   + ...|..+..++.+..++   +...|+.+||..++...
T Consensus       247 ~~~~~~~~~I~~ar~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~~v  322 (350)
T CHL00081        247 ESQEELRSKIVAAQNLLPKVEIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVITLC  322 (350)
T ss_pred             cccccCHHHHHHHHHhcCCCccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence                            134678898888877654   3 25888777776554444   78899999999887544

>KOG2004|consensus

Probab=99.35  E-value=3.9e-12  Score=129.48  Aligned_cols=184  Identities=18%  Similarity=0.276  Sum_probs=126.4

Q ss_pred             cccccHHHHHHHHHHHhcCCCC----e--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH---
Q psy12150         46 DVIEQQEVVSVLKKCLSGADLP----H--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK---  116 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~~~~----~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~---  116 (456)
                      +-.|.+.+++++.+++.-+.+.    .  +.|+||||+|||++++.+|++++.++++     ++........+|+.-   
T Consensus       412 DHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfR-----fSvGG~tDvAeIkGHRRT  486 (906)
T KOG2004|consen  412 DHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFR-----FSVGGMTDVAEIKGHRRT  486 (906)
T ss_pred             cccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEE-----EeccccccHHhhccccee
Confidence            6678899999999998654432    2  9999999999999999999999876543     333322222222221   


Q ss_pred             --------HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH----HHHHHHHHHHh-------------cc--Ccce
Q psy12150        117 --------VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA----AQAALRRTMEK-------------ET--KSTR  169 (456)
Q Consensus       117 --------l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~----~~~~Ll~~le~-------------~~--~~~~  169 (456)
                              +-+....-.          ....+++|||+|.+...    -..+|++.|+-             |-  ..+.
T Consensus       487 YVGAMPGkiIq~LK~v~----------t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVL  556 (906)
T KOG2004|consen  487 YVGAMPGKIIQCLKKVK----------TENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVL  556 (906)
T ss_pred             eeccCChHHHHHHHhhC----------CCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheE
Confidence                    111111100          12239999999998642    23456665531             11  2467


Q ss_pred             EEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHH-----H-----cCCCCCHHHHHHHHHHc--CCCHHHHHH
Q psy12150        170 FCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE-----Q-----ESVMCDFKALETLVETS--GGDMRRAIT  237 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~-----~-----~~~~i~~~~l~~L~~~s--~gdlr~~~~  237 (456)
                      ||+++|....+.++|+.|..+|+++.+..+|-..+.++++-     +     +.++++++++..|++..  ..-+|.+-.
T Consensus       557 FicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yLip~a~~~~gl~~e~v~is~~al~~lI~~YcrEaGVRnLqk  636 (906)
T KOG2004|consen  557 FICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYLIPQALKDCGLKPEQVKISDDALLALIERYCREAGVRNLQK  636 (906)
T ss_pred             EEEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhhhhHHHHHcCCCHHhcCccHHHHHHHHHHHHHHHhHHHHHH
Confidence            88888999999999999999999999999998777665542     2     44679999998887653  345777777


Q ss_pred             HHHHHHH
Q psy12150        238 CLQSCAR  244 (456)
Q Consensus       238 ~L~~~~~  244 (456)
                      .+++++.
T Consensus       637 ~iekI~R  643 (906)
T KOG2004|consen  637 QIEKICR  643 (906)
T ss_pred             HHHHHHH
Confidence            7766544

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=99.35  E-value=4.2e-11  Score=124.54  Aligned_cols=211  Identities=19%  Similarity=0.161  Sum_probs=137.6

Q ss_pred             CcccccccHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHH
Q psy12150         43 TIDDVIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~  120 (456)
                      .+.+++|+...++.+.+.++.-.  ..+++|+|++||||+++|++++.....  ...+++.+||..... ..+...+...
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r--~~~p~v~v~c~~~~~-~~~e~~lfG~  261 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPR--ADKPLVYLNCAALPE-SLAESELFGH  261 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCCc--CCCCeEEEEcccCCh-HHHHHHhcCc
Confidence            56789999988888877776432  234999999999999999999997543  234789999987432 2222111110


Q ss_pred             HHhhccCCC--CCCC-CCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------cc
Q psy12150        121 AQQTASGFN--QDGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SC  179 (456)
Q Consensus       121 ~~~~~~~~~--~~~~-~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~k  179 (456)
                      ....+.+..  ..+. ..++..++||||++.|+.+.|..|++++++..           ..+.+|++++..       ..
T Consensus       262 ~~g~~~ga~~~~~g~~~~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~~~~~~  341 (509)
T PRK05022        262 VKGAFTGAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRDLREEVRAGR  341 (509)
T ss_pred             cccccCCCcccCCcchhhcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCCCHHHHHHcCC
Confidence            000000000  0000 01344589999999999999999999997643           246788877643       22


Q ss_pred             ccccccCCce--EEEecCCCH--HHHHHHHHH----HHHHcC---CCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhhC
Q psy12150        180 IIQPLTSRCS--KFRFKPLAE--NTMLTRLQY----ICEQES---VMCDFKALETLVET-SGGDMRRAITCLQSCARLKG  247 (456)
Q Consensus       180 l~~~l~~r~~--~i~f~~~~~--~el~~~l~~----~~~~~~---~~i~~~~l~~L~~~-s~gdlr~~~~~L~~~~~~~~  247 (456)
                      +...|..|..  .|+++|+.+  +++..++..    .+.+.|   ..+++++++.|..+ ++||+|++.|.++.++..+.
T Consensus       342 f~~dL~~rl~~~~i~lPpLreR~eDI~~L~~~fl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvrEL~~~i~ra~~~~~  421 (509)
T PRK05022        342 FRADLYHRLSVFPLSVPPLRERGDDVLLLAGYFLEQNRARLGLRSLRLSPAAQAALLAYDWPGNVRELEHVISRAALLAR  421 (509)
T ss_pred             ccHHHHhcccccEeeCCCchhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHhcC
Confidence            3344545544  567777764  455444443    333333   56999999999886 59999999999999988764


Q ss_pred             CC------CCCHHHH
Q psy12150        248 GE------GIVNEDV  256 (456)
Q Consensus       248 ~~------~It~~~v  256 (456)
                      +.      .|+.+++
T Consensus       422 ~~~~~~~~~i~~~~l  436 (509)
T PRK05022        422 ARGAGRIVTLEAQHL  436 (509)
T ss_pred             CCccCccceecHHHc
Confidence            43      3665554

>KOG2227|consensus

Probab=99.34  E-value=1.2e-10  Score=113.82  Aligned_cols=208  Identities=18%  Similarity=0.206  Sum_probs=143.6

Q ss_pred             hhccCCCCcccccccHHHHHHHHHHHhc----CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChH
Q psy12150         36 VEKYRPKTIDDVIEQQEVVSVLKKCLSG----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ  111 (456)
Q Consensus        36 ~eky~P~~~~~ivg~~~~~~~l~~~l~~----~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~  111 (456)
                      ...+.|.   .+.|++..++.+++|+..    .....+++.|.||+|||.....+...+.........+++|+.......
T Consensus       144 ~~t~~p~---~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~  220 (529)
T KOG2227|consen  144 LNTAPPG---TLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEAS  220 (529)
T ss_pred             HhcCCCC---CccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchH
Confidence            3345554   478999999999998753    333349999999999999999998887665555567899998755555


Q ss_pred             HHHHHHHH-HHHhhccCCCCC---------CCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc---cCcceEEEEecCc-
Q psy12150        112 VIRDKVKT-FAQQTASGFNQD---------GKPCPPFKIVILDEADSMTHAAQAALRRTMEKE---TKSTRFCLICNYV-  177 (456)
Q Consensus       112 ~i~~~l~~-~~~~~~~~~~~~---------~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~---~~~~~lIl~~~~~-  177 (456)
                      .+...+.. +.+.........         ......--++++||.|+|....+..|..+.+.+   ....++|.++|.. 
T Consensus       221 aiF~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslD  300 (529)
T KOG2227|consen  221 AIFKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLD  300 (529)
T ss_pred             HHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhh
Confidence            44443322 211111100000         000011238999999999887777777776654   3456667777753 


Q ss_pred             --ccccccccCCce----EEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHc---CCCHHHHHHHHHHHHHhh
Q psy12150        178 --SCIIQPLTSRCS----KFRFKPLAENTMLTRLQYICEQESVM-CDFKALETLVETS---GGDMRRAITCLQSCARLK  246 (456)
Q Consensus       178 --~kl~~~l~~r~~----~i~f~~~~~~el~~~l~~~~~~~~~~-i~~~~l~~L~~~s---~gdlr~~~~~L~~~~~~~  246 (456)
                        ..+.+.|..++.    .+.|+|++.+++.++++.++..+... +-+.+++..++..   .||+|+++..++.+...+
T Consensus       301 lTdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~aiEI~  379 (529)
T KOG2227|consen  301 LTDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCRRAIEIA  379 (529)
T ss_pred             HHHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHHHHHHHH
Confidence              455666666543    89999999999999999999876544 4456888877653   699999999999776655

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.33  E-value=5.9e-11  Score=119.11  Aligned_cols=211  Identities=13%  Similarity=0.123  Sum_probs=125.7

Q ss_pred             ccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH--HHHHHH
Q psy12150         45 DDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK--VKTFAQ  122 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~--l~~~~~  122 (456)
                      +.++|++++++.+...+..+.  |++|+||||+|||++|+++++.+....   .+...++..... .++...  +.....
T Consensus        20 ~~i~gre~vI~lll~aalag~--hVLL~GpPGTGKT~LAraLa~~~~~~~---~F~~~~~~fttp-~DLfG~l~i~~~~~   93 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAFQNAR---AFEYLMTRFSTP-EEVFGPLSIQALKD   93 (498)
T ss_pred             hhccCcHHHHHHHHHHHccCC--CEEEECCCChhHHHHHHHHHHHhcccC---cceeeeeeecCc-HHhcCcHHHhhhhh
Confidence            357899999999988887653  699999999999999999999864321   122222221011 111110  111100


Q ss_pred             hhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc----------CcceEEEEecCcc---cccccccCCce
Q psy12150        123 QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET----------KSTRFCLICNYVS---CIIQPLTSRCS  189 (456)
Q Consensus       123 ~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~----------~~~~lIl~~~~~~---kl~~~l~~r~~  189 (456)
                      ...+.....| +.....++|+||+..+++..++.|+..|++..          +..++++++|+..   ...+++..|+.
T Consensus        94 ~g~f~r~~~G-~L~~A~lLfLDEI~rasp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN~LPE~g~~leAL~DRFl  172 (498)
T PRK13531         94 EGRYQRLTSG-YLPEAEIVFLDEIWKAGPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNELPEADSSLEALYDRML  172 (498)
T ss_pred             cCchhhhcCC-ccccccEEeecccccCCHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCCCcccCCchHHhHhhEE
Confidence            0000000011 11123399999999999999999999996532          2234455555432   23346777775


Q ss_pred             -EEEecCCC-HHHHHHHHHHHHH-----------------------HcCCCCCHHHHHHHHHHc------C----CCHHH
Q psy12150        190 -KFRFKPLA-ENTMLTRLQYICE-----------------------QESVMCDFKALETLVETS------G----GDMRR  234 (456)
Q Consensus       190 -~i~f~~~~-~~el~~~l~~~~~-----------------------~~~~~i~~~~l~~L~~~s------~----gdlr~  234 (456)
                       .+.+++++ .++..++|.....                       -..+.+++..++.+.+..      .    -+.|.
T Consensus       173 iri~vp~l~~~~~e~~lL~~~~~~~~~~~~~~~vis~eel~~lq~~v~~V~v~d~v~eyI~~L~~~lr~~r~~~~~SpR~  252 (498)
T PRK13531        173 IRLWLDKVQDKANFRSMLTSQQDENDNPVPASLQITDEEYQQWQKEIGKITLPDHVFELIFQLRQQLDALPNAPYVSDRR  252 (498)
T ss_pred             EEEECCCCCchHHHHHHHHcccccccCCCcccCCCCHHHHHHHHHHhcceeCCHHHHHHHHHHHHHHhcCCCCCCcCcHH
Confidence             67778886 4554666643211                       134567777777766543      2    24666


Q ss_pred             HHHHHHHH---HHhhCCCCCCHHHHHHHhCCC
Q psy12150        235 AITCLQSC---ARLKGGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       235 ~~~~L~~~---~~~~~~~~It~~~v~~~~~~~  263 (456)
                      .+..+..+   +.+.|+..|+++||. ++...
T Consensus       253 ~~~l~~~akA~A~l~GR~~V~p~Dv~-ll~~v  283 (498)
T PRK13531        253 WKKAIRLLQASAFFSGRDAIAPIDLI-LLKDC  283 (498)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCHHHHH-HhHHH
Confidence            66655443   334478899999999 55433

>KOG0742|consensus

Probab=99.31  E-value=4.9e-11  Score=114.38  Aligned_cols=152  Identities=20%  Similarity=0.250  Sum_probs=103.7

Q ss_pred             cccccccHHHHHHHHHHHh--------cCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChH--HH
Q psy12150         44 IDDVIEQQEVVSVLKKCLS--------GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ--VI  113 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~--------~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~--~i  113 (456)
                      |+++|-++....+|.+...        ++.+.+++||||||||||.+++.++..-+-     ++.-+.+.|....+  .+
T Consensus       354 l~~ViL~psLe~Rie~lA~aTaNTK~h~apfRNilfyGPPGTGKTm~ArelAr~SGl-----DYA~mTGGDVAPlG~qaV  428 (630)
T KOG0742|consen  354 LEGVILHPSLEKRIEDLAIATANTKKHQAPFRNILFYGPPGTGKTMFARELARHSGL-----DYAIMTGGDVAPLGAQAV  428 (630)
T ss_pred             cCCeecCHHHHHHHHHHHHHhcccccccchhhheeeeCCCCCCchHHHHHHHhhcCC-----ceehhcCCCccccchHHH
Confidence            8888888888777776642        344566999999999999999999987432     34444444433222  22


Q ss_pred             HH--HHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH---------H---HHHHHHHHHHhccCcceEEEEecCccc
Q psy12150        114 RD--KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH---------A---AQAALRRTMEKETKSTRFCLICNYVSC  179 (456)
Q Consensus       114 ~~--~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~---------~---~~~~Ll~~le~~~~~~~lIl~~~~~~k  179 (456)
                      ..  .+.+......           ..-++||||+|.+.-         +   +.++|+-.--+.+...++++++|.+..
T Consensus       429 TkiH~lFDWakkS~-----------rGLllFIDEADAFLceRnktymSEaqRsaLNAlLfRTGdqSrdivLvlAtNrpgd  497 (630)
T KOG0742|consen  429 TKIHKLFDWAKKSR-----------RGLLLFIDEADAFLCERNKTYMSEAQRSALNALLFRTGDQSRDIVLVLATNRPGD  497 (630)
T ss_pred             HHHHHHHHHHhhcc-----------cceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHHhcccccceEEEeccCCccc
Confidence            11  1222222221           223899999997632         1   233333322345567889999999999


Q ss_pred             ccccccCCce-EEEecCCCHHHHHHHHHHHHHH
Q psy12150        180 IIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ  211 (456)
Q Consensus       180 l~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~  211 (456)
                      ++.++..|+. +++|+-|-+++...+|...+.+
T Consensus       498 lDsAV~DRide~veFpLPGeEERfkll~lYlnk  530 (630)
T KOG0742|consen  498 LDSAVNDRIDEVVEFPLPGEEERFKLLNLYLNK  530 (630)
T ss_pred             hhHHHHhhhhheeecCCCChHHHHHHHHHHHHH
Confidence            9999999986 8999999999988888777664

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.31  E-value=1.1e-10  Score=113.98  Aligned_cols=216  Identities=15%  Similarity=0.154  Sum_probs=130.4

Q ss_pred             cccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC-------Ccc-------------cc------
Q psy12150         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-------DMY-------------RE------   97 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~-------~~~-------------~~------   97 (456)
                      |..++|+++++..+.-.+-.....+++|.|++|+|||+++++++..+..       +..             +.      
T Consensus         3 f~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~   82 (337)
T TIGR02030         3 FTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPEMMCEEVRIRVDSQE   82 (337)
T ss_pred             ccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCccccChHHhhhhhccc
Confidence            7889999999988876666555667999999999999999999987621       000             00      


Q ss_pred             ---------ceEEeeC--CC--CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc
Q psy12150         98 ---------RILELNA--SD--DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (456)
Q Consensus        98 ---------~~~e~n~--~~--~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~  164 (456)
                               ++.++..  ..  ..+..++...+.    .......+.--..++..++++||++.+.+..|..|++.|++.
T Consensus        83 ~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~----~g~~~~~~GlL~~A~~GvL~lDEi~~L~~~~Q~~Ll~~l~~g  158 (337)
T TIGR02030        83 PLSIIKKPVPVVDLPLGATEDRVCGTLDIERALT----EGVKAFEPGLLARANRGILYIDEVNLLEDHLVDVLLDVAASG  158 (337)
T ss_pred             ccccccCCCCcCCCCCCCcccceecchhHhhHhh----cCCEEeecCcceeccCCEEEecChHhCCHHHHHHHHHHHHhC
Confidence                     0000000  00  001111111110    000000000000134569999999999999999999999764


Q ss_pred             c-------------CcceEEEEecCc-ccccccccCCce-EEEecCCCH-HHHHHHHHHHHH------------------
Q psy12150        165 T-------------KSTRFCLICNYV-SCIIQPLTSRCS-KFRFKPLAE-NTMLTRLQYICE------------------  210 (456)
Q Consensus       165 ~-------------~~~~lIl~~~~~-~kl~~~l~~r~~-~i~f~~~~~-~el~~~l~~~~~------------------  210 (456)
                      .             ..++++.+.|.. ..+.+++..|+. .+.+..+.. ++..++++....                  
T Consensus       159 ~~~v~r~G~~~~~~~r~iviat~np~eg~l~~~LldRf~l~i~l~~p~~~eer~eIL~~~~~~~~~~~~~~~~~~~e~~~  238 (337)
T TIGR02030       159 WNVVEREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGLHAEIRTVRDVELRVEIVERRTEYDADPHAFCEKWQTEQEA  238 (337)
T ss_pred             CeEEEECCEEEEcCCCEEEEeccccccCCCCHHHHhhcceEEECCCCCCHHHHHHHHHhhhhcccCchhhhhhhhhhhhc
Confidence            2             122333333322 346677888877 667777765 555555544211                  


Q ss_pred             -----------HcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCC
Q psy12150        211 -----------QESVMCDFKALETLVETS---GG-DMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       211 -----------~~~~~i~~~~l~~L~~~s---~g-dlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~~~  263 (456)
                                 -..+.++++.+++++..+   +. ..|..+..+..+..++   +...|+.+||+.++...
T Consensus       239 ~~~~I~~a~~~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~~v  309 (337)
T TIGR02030       239 LQAKIVNAQNLLPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAVLA  309 (337)
T ss_pred             CHHHHHHHHHHhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence                       134668888888776643   43 4788777776655544   77899999999876543

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.

>KOG0729|consensus

Probab=99.30  E-value=3.7e-11  Score=109.21  Aligned_cols=204  Identities=17%  Similarity=0.199  Sum_probs=128.4

Q ss_pred             CCcccccccHHHHHHHHHHHhc------------CCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSG------------ADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~------------~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      -++.++-|..+.+..+++.++-            -.+|. +|+|||||+|||..++++++....     -++.+-.+...
T Consensus       174 vty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtda-----cfirvigselv  248 (435)
T KOG0729|consen  174 VTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDA-----CFIRVIGSELV  248 (435)
T ss_pred             cccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCc-----eEEeehhHHHH
Confidence            4789999999999999887642            22333 999999999999999999997533     34433232200


Q ss_pred             --ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHH-----hccCcceE
Q psy12150        109 --GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTME-----KETKSTRF  170 (456)
Q Consensus       109 --~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le-----~~~~~~~l  170 (456)
                        -+++=...+.++...+.     ..+.|    +||+||+|.+..           +.|...++++.     ++..+..+
T Consensus       249 qkyvgegarmvrelf~mar-----tkkac----iiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikv  319 (435)
T KOG0729|consen  249 QKYVGEGARMVRELFEMAR-----TKKAC----IIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKV  319 (435)
T ss_pred             HHHhhhhHHHHHHHHHHhc-----ccceE----EEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEE
Confidence              00111122333333332     22344    999999998853           34556666664     35567889


Q ss_pred             EEEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCCCHH-HHHHHHHHHHHh
Q psy12150        171 CLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGGDMR-RAITCLQSCARL  245 (456)
Q Consensus       171 Il~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~-~l~~L~~~s~gdlr-~~~~~L~~~~~~  245 (456)
                      ++++|.+..+.++|.+.+.   .++|.-|+-+-...+++-+++..  .++.+ -.++|++.|+.+-. .+...+-.+..+
T Consensus       320 lmatnrpdtldpallrpgrldrkvef~lpdlegrt~i~kihaksm--sverdir~ellarlcpnstgaeirsvcteagmf  397 (435)
T KOG0729|consen  320 LMATNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSM--SVERDIRFELLARLCPNSTGAEIRSVCTEAGMF  397 (435)
T ss_pred             EeecCCCCCcCHhhcCCcccccceeccCCcccccceeEEEecccc--ccccchhHHHHHhhCCCCcchHHHHHHHHhhHH
Confidence            9999999999999987765   79999888877777776655532  23322 35667777654322 222333333333


Q ss_pred             h---CCCCCCHHHHHHHhC
Q psy12150        246 K---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       246 ~---~~~~It~~~v~~~~~  261 (456)
                      +   ..+..|..|..+++.
T Consensus       398 airarrk~atekdfl~av~  416 (435)
T KOG0729|consen  398 AIRARRKVATEKDFLDAVN  416 (435)
T ss_pred             HHHHHhhhhhHHHHHHHHH
Confidence            3   455667777655543

>PRK14700 recombination factor protein RarA; Provisional

Probab=99.30  E-value=8.3e-11  Score=110.46  Aligned_cols=138  Identities=12%  Similarity=0.049  Sum_probs=110.4

Q ss_pred             cceEEEEec--CcccccccccCCceEEEecCCCHHHHHHHHHHHHHHc------CCCCCHHHHHHHHHHcCCCHHHHHHH
Q psy12150        167 STRFCLICN--YVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQE------SVMCDFKALETLVETSGGDMRRAITC  238 (456)
Q Consensus       167 ~~~lIl~~~--~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~------~~~i~~~~l~~L~~~s~gdlr~~~~~  238 (456)
                      .+++|.+|+  +...+.++|+|||.++.|.+++.+++..++++.+..+      .+.+++++++.|+..++||.|.++|.
T Consensus         8 ~i~LIGATTENP~f~vn~ALlSR~~v~~l~~L~~~di~~il~ral~~~~~~~~~~~~i~~~al~~ia~~a~GDaR~aLN~   87 (300)
T PRK14700          8 KIILIGATTENPTYYLNDALVSRLFILRLKRLSLVATQKLIEKALSQDEVLAKHKFKIDDGLYNAMHNYNEGDCRKILNL   87 (300)
T ss_pred             cEEEEeecCCCccceecHhhhhhhheeeecCCCHHHHHHHHHHHHHhhhccCCcCCCcCHHHHHHHHHhcCCHHHHHHHH
Confidence            345555553  4578999999999999999999999999999988752      36799999999999999999999999


Q ss_pred             HHHHHHhh-CC--CCCCHHHHHHHhCCC------CHHHHHHHHcc-------cchHHHHHHHHHHHHhccCHHHHHHHHH
Q psy12150        239 LQSCARLK-GG--EGIVNEDVLEVTGVI------PKPWIEKLLKV-------DSFQVLEKYIEDLILEAYSATQLFDQFH  302 (456)
Q Consensus       239 L~~~~~~~-~~--~~It~~~v~~~~~~~------~~~~i~~l~~~-------~~~~~a~~~~~~l~~~~~~~~~i~~q~~  302 (456)
                      |+.++... +.  ..||.+.+++++...      ..+.-++++.+       .|.+.|+.|+..|++.||+|.-|.|.+-
T Consensus        88 LE~a~~~~~~~~~~~it~~~~~~~~~~~~~~yDk~gd~HYd~iSAf~KSiRGSDpDAAlYyLArml~~GEDp~~IaRRLi  167 (300)
T PRK14700         88 LERMFLISTRGDEIYLNKELFDQAVGETSRDFHREGKEFYEQLSAFHKSVRGTDPDAAIFWLSVMLDNGVDPLVIARRML  167 (300)
T ss_pred             HHHHHhhccccCCCccCHHHHHHHHhHHHhcccCCcchhHHHHHHHHHHhhcCCccHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            99976533 22  239999999987633      12344444444       7889999999999999999999988654


Q ss_pred             HH
Q psy12150        303 DI  304 (456)
Q Consensus       303 ~l  304 (456)
                      .+
T Consensus       168 i~  169 (300)
T PRK14700        168 CI  169 (300)
T ss_pred             HH
Confidence            33

>PF06144 DNA_pol3_delta: DNA polymerase III, delta subunit; InterPro: IPR010372 DNA polymerase III, delta subunit (2

Probab=99.30  E-value=6.5e-12  Score=111.76  Aligned_cols=163  Identities=15%  Similarity=0.201  Sum_probs=113.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC-CccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCC-
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA-  146 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~-~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~-  146 (456)
                      |+|||+.-.-+...++.+.+.+.. +....++..++..+.    ...+.+..+.+.+.+         +++++|+|.++ 
T Consensus         1 Yll~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~----~~~~l~~~~~s~slF---------~~~klvii~~~~   67 (172)
T PF06144_consen    1 YLLYGEDSFLIEEYIKKIRKALIKKDFDDFNVIVFDGSED----DIDELLEELQSPSLF---------GDKKLVIIKNAP   67 (172)
T ss_dssp             EEEEES-HHHHHHHHHHHHHHHHTTTEEEEEEEE-STTS-----HHH-HTTTSTTTTSS---------SSEEEEEEE---
T ss_pred             CEEEeCcHHHHHHHHHHHHHHhhcCCCccceEEEEccccC----cHHHHHHHHhcCCcc---------CCCeEEEEecCc
Confidence            799999988888888888888443 333345555555541    122222222222222         37889999999 


Q ss_pred             ---CCccHHHHHHHHHHHHhccCcceEEEEec-Cc---ccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHH
Q psy12150        147 ---DSMTHAAQAALRRTMEKETKSTRFCLICN-YV---SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFK  219 (456)
Q Consensus       147 ---d~l~~~~~~~Ll~~le~~~~~~~lIl~~~-~~---~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~  219 (456)
                         +....+....|..+++++++++.+|+.++ ..   .++.+.+.+.+.++.|.+++..++..|++..+++.|+.++++
T Consensus        68 ~l~~~~~~~~~~~l~~~l~~~~~~~~lii~~~~~~~~~~k~~k~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~i~~~  147 (172)
T PF06144_consen   68 FLKDKLKKKEIKALIEYLSNPPPDCILIIFSEEKLDKRKKLYKALKKQAIVIECKKPKEQELPRWIKERAKKNGLKIDPD  147 (172)
T ss_dssp             --TT-S-TTHHHHHHHHTTT--SSEEEEEEES-S--HHHHHHHHHTTTEEEEEE----TTTHHHHHHHHHHHTT-EE-HH
T ss_pred             cccccccHHHHHHHHHHHhCCCCCEEEEEEeCCchhhhhhHHHHHhcccceEEecCCCHHHHHHHHHHHHHHcCCCCCHH
Confidence               44556678899999999999888888877 32   356788888999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHH
Q psy12150        220 ALETLVETSGGDMRRAITCLQSCAR  244 (456)
Q Consensus       220 ~l~~L~~~s~gdlr~~~~~L~~~~~  244 (456)
                      +++.|+..+++|++.+.+++++++.
T Consensus       148 a~~~L~~~~~~d~~~l~~EleKL~L  172 (172)
T PF06144_consen  148 AAQYLIERVGNDLSLLQNELEKLSL  172 (172)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhcC
Confidence            9999999999999999999999863

7.7.7 from EC) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction []. The delta subunit is also known as HolA.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3GLG_F 1XXH_A 1JQL_B 3GLF_F 1JQJ_C 3GLI_F.

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

Probab=99.29  E-value=4.7e-11  Score=111.20  Aligned_cols=187  Identities=18%  Similarity=0.263  Sum_probs=107.5

Q ss_pred             ccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH---------H
Q psy12150         47 VIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK---------V  117 (456)
Q Consensus        47 ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~---------l  117 (456)
                      ++|++..++.|.+++.++...+++|+||.|+|||++++.+.+.+.....  ..+.++.............         +
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~--~~~y~~~~~~~~~~~~~~~~~~~~~~~~l   78 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKGY--KVVYIDFLEESNESSLRSFIEETSLADEL   78 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--EE--CCCHHCCTTBSHHHHHHHHHHHHHHHCHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCC--cEEEEecccchhhhHHHHHHHHHHHHHHH
Confidence            5799999999999999877677999999999999999999998743222  2222333222211111111         0


Q ss_pred             HHHHHhhccCCC-------CCCCC-------------CCCcEEEEEcCCCCcc------HHHHHHHHHHHHh--ccCcce
Q psy12150        118 KTFAQQTASGFN-------QDGKP-------------CPPFKIVILDEADSMT------HAAQAALRRTMEK--ETKSTR  169 (456)
Q Consensus       118 ~~~~~~~~~~~~-------~~~~~-------------~~~~~iviIDE~d~l~------~~~~~~Ll~~le~--~~~~~~  169 (456)
                      ............       .....             ...+-+|+|||++.+.      ......|..+++.  ...+..
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  158 (234)
T PF01637_consen   79 SEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVS  158 (234)
T ss_dssp             HHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEE
T ss_pred             HHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCce
Confidence            011111000000       00000             0123599999999998      3445666666665  234455


Q ss_pred             EEEEecCc------ccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHH
Q psy12150        170 FCLICNYV------SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMC--DFKALETLVETSGGDMRRAI  236 (456)
Q Consensus       170 lIl~~~~~------~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i--~~~~l~~L~~~s~gdlr~~~  236 (456)
                      +|+++...      ..-..++..|+..+.+++++.++..+++...+... ..+  +++.++.++..++|.++.+.
T Consensus       159 ~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~~~~~~~~~~i~~~~gG~P~~l~  232 (234)
T PF01637_consen  159 IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKLPFSDEDIEEIYSLTGGNPRYLQ  232 (234)
T ss_dssp             EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHH
T ss_pred             EEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcccCCHHHHHHHHHHhCCCHHHHh
Confidence            55555432      12345577888889999999999999999988766 655  99999999999999998764

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

>KOG0740|consensus

Probab=99.28  E-value=3.4e-11  Score=118.66  Aligned_cols=180  Identities=17%  Similarity=0.175  Sum_probs=125.0

Q ss_pred             hccCCCCcccccccHHHHHHHHHHHh----------cCCC--CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC
Q psy12150         37 EKYRPKTIDDVIEQQEVVSVLKKCLS----------GADL--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        37 eky~P~~~~~ivg~~~~~~~l~~~l~----------~~~~--~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      ++-++-.|+++.|.+.+.+.+.+.+-          +-+.  ..+|+.||||+|||.+++++|.+...     .++.+.+
T Consensus       145 ~~~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~~a-----tff~iSa  219 (428)
T KOG0740|consen  145 DTLRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRGLLLFGPPGTGKTMLAKAIATESGA-----TFFNISA  219 (428)
T ss_pred             ccCCcccccCCcchhhHHHHhhhhhhhcccchHhhhccccccchhheecCCCCchHHHHHHHHhhhcc-----eEeeccH
Confidence            34455678899998888877776642          2222  23999999999999999999999755     4555555


Q ss_pred             CCCcC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH------------HHHHHHHHHH---hccCc
Q psy12150        105 SDDRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA------------AQAALRRTME---KETKS  167 (456)
Q Consensus       105 ~~~~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~------------~~~~Ll~~le---~~~~~  167 (456)
                      +...+  .+.....+..+...+...     .|    .|+||||+|.+...            ..+.|++..-   .+.+.
T Consensus       220 ssLtsK~~Ge~eK~vralf~vAr~~-----qP----svifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~~~dr  290 (428)
T KOG0740|consen  220 SSLTSKYVGESEKLVRALFKVARSL-----QP----SVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSAPDDR  290 (428)
T ss_pred             HHhhhhccChHHHHHHHHHHHHHhc-----CC----eEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCCCCCe
Confidence            54221  222233333333332221     22    39999999988543            1234444332   23456


Q ss_pred             ceEEEEecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q psy12150        168 TRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG  230 (456)
Q Consensus       168 ~~lIl~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g  230 (456)
                      ++++.++|.++.+..++++|+. ++.++.|+.+....++.+.+.+.+..+.+..++.|++.+.|
T Consensus       291 vlvigaTN~P~e~Dea~~Rrf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Teg  354 (428)
T KOG0740|consen  291 VLVIGATNRPWELDEAARRRFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEG  354 (428)
T ss_pred             EEEEecCCCchHHHHHHHHHhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcC
Confidence            7777788899999999999988 66778888888888888888888888999999999998765

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.28  E-value=5.6e-11  Score=124.99  Aligned_cols=190  Identities=20%  Similarity=0.289  Sum_probs=135.7

Q ss_pred             cccccHHHHHHHHHHHhcCC--------C-CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH
Q psy12150         46 DVIEQQEVVSVLKKCLSGAD--------L-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK  116 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~~--------~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~  116 (456)
                      .++||++++..+.+.++..+        + ..++|.||+|+|||.++++++..++++..  .++.+|+|+......+...
T Consensus       492 rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~--aliR~DMSEy~EkHsVSrL  569 (786)
T COG0542         492 RVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQ--ALIRIDMSEYMEKHSVSRL  569 (786)
T ss_pred             ceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCc--cceeechHHHHHHHHHHHH
Confidence            57899999999988886322        2 23999999999999999999999987543  6888888886555444333


Q ss_pred             HHHHHHhhccCCCCC--CCC-----CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-
Q psy12150        117 VKTFAQQTASGFNQD--GKP-----CPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-  177 (456)
Q Consensus       117 l~~~~~~~~~~~~~~--~~~-----~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-  177 (456)
                          ...++...+..  |..     ..+|.||++||++.-.++.++.|++.|++..           .++++|+|+|-- 
T Consensus       570 ----IGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~Gs  645 (786)
T COG0542         570 ----IGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGS  645 (786)
T ss_pred             ----hCCCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecccch
Confidence                22332222111  110     1467899999999999999999999998642           468899998721 


Q ss_pred             --------c-------------------cccccccCCce-EEEecCCCHHHHHHHHHHHHHH-------cCC--CCCHHH
Q psy12150        178 --------S-------------------CIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ-------ESV--MCDFKA  220 (456)
Q Consensus       178 --------~-------------------kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~-------~~~--~i~~~~  220 (456)
                              .                   .+.|.+.+|.. +|.|.+++.+.+.+++...+.+       .++  .+++++
T Consensus       646 ~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLNRid~II~F~~L~~~~l~~Iv~~~L~~l~~~L~~~~i~l~~s~~a  725 (786)
T COG0542         646 EEILRDADGDDFADKEALKEAVMEELKKHFRPEFLNRIDEIIPFNPLSKEVLERIVDLQLNRLAKRLAERGITLELSDEA  725 (786)
T ss_pred             HHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHhhcccEEeccCCCHHHHHHHHHHHHHHHHHHHHhCCceEEECHHH
Confidence                    0                   02355677776 8999999999998887766542       343  578999


Q ss_pred             HHHHHHHcC---CCHHHHHHHHHH
Q psy12150        221 LETLVETSG---GDMRRAITCLQS  241 (456)
Q Consensus       221 l~~L~~~s~---gdlr~~~~~L~~  241 (456)
                      .+.|++.+-   .-.|-+.+.++.
T Consensus       726 ~~~l~~~gyd~~~GARpL~R~Iq~  749 (786)
T COG0542         726 KDFLAEKGYDPEYGARPLRRAIQQ  749 (786)
T ss_pred             HHHHHHhccCCCcCchHHHHHHHH
Confidence            999998753   234555555554

>KOG2680|consensus

Probab=99.27  E-value=1.2e-10  Score=107.64  Aligned_cols=121  Identities=20%  Similarity=0.277  Sum_probs=100.0

Q ss_pred             EEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC------------cccccccccCCceEEEecCCCHHHHHHHHH
Q psy12150        139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY------------VSCIIQPLTSRCSKFRFKPLAENTMLTRLQ  206 (456)
Q Consensus       139 ~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~------------~~kl~~~l~~r~~~i~f~~~~~~el~~~l~  206 (456)
                      .++||||++.|.-+++..|.+.+++.- .+++++++|.            ++-+.-.+..|...+...|++.+++..+|+
T Consensus       290 GVLFIDEvHMLDIEcFsFlNrAlE~d~-~PiiimaTNrgit~iRGTn~~SphGiP~D~lDR~lII~t~py~~~d~~~IL~  368 (454)
T KOG2680|consen  290 GVLFIDEVHMLDIECFSFLNRALENDM-APIIIMATNRGITRIRGTNYRSPHGIPIDLLDRMLIISTQPYTEEDIKKILR  368 (454)
T ss_pred             ceEEEeeehhhhhHHHHHHHHHhhhcc-CcEEEEEcCCceEEeecCCCCCCCCCcHHHhhhhheeecccCcHHHHHHHHH
Confidence            499999999999999999999998643 3456666653            345666788999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHh
Q psy12150        207 YICEQESVMCDFKALETLVETS-GGDMRRAITCLQSCARLK---GGEGIVNEDVLEVT  260 (456)
Q Consensus       207 ~~~~~~~~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~  260 (456)
                      -+|.++.+.+++++++.|.... ..++|.+++.+..+...+   .+..+..+||..+.
T Consensus       369 iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r~y  426 (454)
T KOG2680|consen  369 IRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIERVY  426 (454)
T ss_pred             hhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHHHH
Confidence            9999999999999999998865 568999999997665544   46778888887654

>KOG0736|consensus

Probab=99.27  E-value=5.3e-11  Score=122.24  Aligned_cols=168  Identities=19%  Similarity=0.262  Sum_probs=103.4

Q ss_pred             CcccccccHHHHHHHHHHHhc-----------CCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC----
Q psy12150         43 TIDDVIEQQEVVSVLKKCLSG-----------ADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD----  106 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~~-----------~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~----  106 (456)
                      +|+|+-|-++++..+.+.++-           -+.+. +|||||||||||.+|+++|.++.     .+++.+.+.+    
T Consensus       670 ~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcs-----L~FlSVKGPELLNM  744 (953)
T KOG0736|consen  670 SWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECS-----LNFLSVKGPELLNM  744 (953)
T ss_pred             chhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhce-----eeEEeecCHHHHHH
Confidence            799999999999999888742           22233 99999999999999999999863     3455443332    


Q ss_pred             --CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH-------------HHHHHHHHHH---h-ccCc
Q psy12150        107 --DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-------------AQAALRRTME---K-ETKS  167 (456)
Q Consensus       107 --~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~-------------~~~~Ll~~le---~-~~~~  167 (456)
                        ..+...+++..+    .+.     ...||    |||+||+|.+.++             ....|+.-|+   + ....
T Consensus       745 YVGqSE~NVR~VFe----rAR-----~A~PC----VIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~  811 (953)
T KOG0736|consen  745 YVGQSEENVREVFE----RAR-----SAAPC----VIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQD  811 (953)
T ss_pred             HhcchHHHHHHHHH----Hhh-----ccCCe----EEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCc
Confidence              112233333332    221     23566    9999999999653             2233444343   2 2334


Q ss_pred             ceEEEEecCcccccccccCCce---EEEecCCCHHHH-HHHHHHHHHHcCCCCCHH-HHHHHHHHcCC
Q psy12150        168 TRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTM-LTRLQYICEQESVMCDFK-ALETLVETSGG  230 (456)
Q Consensus       168 ~~lIl~~~~~~kl~~~l~~r~~---~i~f~~~~~~el-~~~l~~~~~~~~~~i~~~-~l~~L~~~s~g  230 (456)
                      +.+|-++|+++-++++|.+-+.   -+...+....+- .++|+..-+  ..+++++ .+..|++.++-
T Consensus       812 VFViGATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTr--kFkLdedVdL~eiAk~cp~  877 (953)
T KOG0736|consen  812 VFVIGATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTR--KFKLDEDVDLVEIAKKCPP  877 (953)
T ss_pred             eEEEecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHH--HccCCCCcCHHHHHhhCCc
Confidence            5556666778888888886654   455555554443 333443333  3444433 36677776643

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=99.27  E-value=1.9e-10  Score=124.11  Aligned_cols=209  Identities=17%  Similarity=0.192  Sum_probs=134.3

Q ss_pred             CCcccccccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHH
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~  119 (456)
                      .+|++++|+...+..+.+.++..  ...+++|+|++|||||++|++++......  ..+++.+||..... ..+...+..
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~--~~~~v~i~c~~~~~-~~~~~~lfg  449 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRN--NRRMVKMNCAAMPA-GLLESDLFG  449 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCCC--CCCeEEEecccCCh-hHhhhhhcC
Confidence            46889999998888877666532  22359999999999999999999875332  33788889886421 222221111


Q ss_pred             HHHhhccCCCC--CC-CCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-c------
Q psy12150        120 FAQQTASGFNQ--DG-KPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-S------  178 (456)
Q Consensus       120 ~~~~~~~~~~~--~~-~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-~------  178 (456)
                      .....+.+...  .+ -..++..++||||++.|+...|..|++++++..           ..+++|++++.. .      
T Consensus       450 ~~~~~~~g~~~~~~g~le~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~~~~~  529 (686)
T PRK15429        450 HERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADR  529 (686)
T ss_pred             cccccccccccchhhHHHhcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCCHHHHHHcC
Confidence            00000000000  00 000234599999999999999999999997642           345787777643 1      


Q ss_pred             cccccccCCce--EEEecCCCH--HHHHHHHH----HHHHHcCC---CCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhh
Q psy12150        179 CIIQPLTSRCS--KFRFKPLAE--NTMLTRLQ----YICEQESV---MCDFKALETLVET-SGGDMRRAITCLQSCARLK  246 (456)
Q Consensus       179 kl~~~l~~r~~--~i~f~~~~~--~el~~~l~----~~~~~~~~---~i~~~~l~~L~~~-s~gdlr~~~~~L~~~~~~~  246 (456)
                      .+...+..|..  .++++|+.+  +++..+++    +.+.+.|.   .+++++++.|..+ ++||+|++.+.++.++..+
T Consensus       530 ~f~~~L~~~l~~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~~s~~al~~L~~y~WPGNvrEL~~~i~~a~~~~  609 (686)
T PRK15429        530 EFRSDLYYRLNVFPIHLPPLRERPEDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLT  609 (686)
T ss_pred             cccHHHHhccCeeEEeCCChhhhHhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCCcHHHHHHHHHHHHHhC
Confidence            12223444433  577777764  45544444    33443343   4799999998876 5999999999999998876


Q ss_pred             CCCCCCH
Q psy12150        247 GGEGIVN  253 (456)
Q Consensus       247 ~~~~It~  253 (456)
                      .+..|+.
T Consensus       610 ~~~~i~~  616 (686)
T PRK15429        610 RGNVLQL  616 (686)
T ss_pred             CCCcccc
Confidence            6666665

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.27  E-value=5.4e-11  Score=119.25  Aligned_cols=187  Identities=20%  Similarity=0.220  Sum_probs=113.1

Q ss_pred             cccccHHHHHHHHHHHhc-------C---------CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC
Q psy12150         46 DVIEQQEVVSVLKKCLSG-------A---------DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~-------~---------~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~  109 (456)
                      .++||+.+++.+...+.+       +         ...++||+||||||||++|+++++.+..     +++.++++....
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~-----pf~~id~~~l~~  146 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDV-----PFAIADATTLTE  146 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCC-----Cceecchhhccc
Confidence            479999999888665511       0         1235999999999999999999998744     455555543221


Q ss_pred             h----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHHHHHHHhcc------
Q psy12150        110 I----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEKET------  165 (456)
Q Consensus       110 ~----~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~Ll~~le~~~------  165 (456)
                      .    ..+...+..+......... .    ..+.+|||||+|.+...              .|+.|++.|+...      
T Consensus       147 ~gyvG~d~e~~l~~l~~~~~~~~~-~----a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~~  221 (412)
T PRK05342        147 AGYVGEDVENILLKLLQAADYDVE-K----AQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQ  221 (412)
T ss_pred             CCcccchHHHHHHHHHHhccccHH-H----cCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEeCCC
Confidence            1    1222223222221110000 0    13459999999999753              7899999997421      


Q ss_pred             ---------------CcceEEEEecCc---------------------c-----------------------cccccccC
Q psy12150        166 ---------------KSTRFCLICNYV---------------------S-----------------------CIIQPLTS  186 (456)
Q Consensus       166 ---------------~~~~lIl~~~~~---------------------~-----------------------kl~~~l~~  186 (456)
                                     .++.||+.++..                     .                       .+.|.+..
T Consensus       222 gg~~~~~~~~~~i~t~nilfi~~Gaf~g~~~~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~dL~~~gf~PEflg  301 (412)
T PRK05342        222 GGRKHPQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQVEPEDLIKFGLIPEFIG  301 (412)
T ss_pred             CCcCcCCCCeEEeccCCceeeecccccCcHHHHHHHHhhcccCCccccccccccchhHHHHHhcCHHHHHHHhhhHHHhC
Confidence                           112233222100                     0                       02455666


Q ss_pred             Cce-EEEecCCCHHHHHHHHHH----HH-------HHcCC--CCCHHHHHHHHHHc---CCCHHHHHHHHHHH
Q psy12150        187 RCS-KFRFKPLAENTMLTRLQY----IC-------EQESV--MCDFKALETLVETS---GGDMRRAITCLQSC  242 (456)
Q Consensus       187 r~~-~i~f~~~~~~el~~~l~~----~~-------~~~~~--~i~~~~l~~L~~~s---~gdlr~~~~~L~~~  242 (456)
                      |.. ++.|.+++.+++.+++..    .+       ...++  .+++++++.|++.+   ..-.|.+.+.+++.
T Consensus       302 Rld~iv~f~~L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~L~~t~~al~~Ia~~~~~~~~GAR~Lrriie~~  374 (412)
T PRK05342        302 RLPVVATLEELDEEALVRILTEPKNALVKQYQKLFEMDGVELEFTDEALEAIAKKAIERKTGARGLRSILEEI  374 (412)
T ss_pred             CCCeeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhCCCCCCCCchHHHHHHHH
Confidence            765 789999999999998872    22       33444  57999999999874   22345555555443

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

Probab=99.26  E-value=9.3e-11  Score=120.33  Aligned_cols=203  Identities=21%  Similarity=0.234  Sum_probs=129.3

Q ss_pred             CCCCcccccccHHHHHHHHHHH---h--------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         40 RPKTIDDVIEQQEVVSVLKKCL---S--------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        40 ~P~~~~~ivg~~~~~~~l~~~l---~--------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      ...+|.|+.|.++.+.++.+.+   +        ++++|. ++++||||||||.+|++++.+..     .+++.++.++.
T Consensus       145 ~~v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~-----VPFf~iSGS~F  219 (596)
T COG0465         145 VKVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAG-----VPFFSISGSDF  219 (596)
T ss_pred             cCcChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccC-----CCceeccchhh
Confidence            3458999999999887776665   3        345555 99999999999999999998753     35666666652


Q ss_pred             ------cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHHHHHHHhcc--
Q psy12150        108 ------RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEKET--  165 (456)
Q Consensus       108 ------~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~Ll~~le~~~--  165 (456)
                            .+...+++...+....         .||    ||||||+|.....              ..+.|+--|+...  
T Consensus       220 VemfVGvGAsRVRdLF~qAkk~---------aP~----IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~  286 (596)
T COG0465         220 VEMFVGVGASRVRDLFEQAKKN---------APC----IIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGN  286 (596)
T ss_pred             hhhhcCCCcHHHHHHHHHhhcc---------CCC----eEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCC
Confidence                  2223344443333222         344    9999999988542              2334444444333  


Q ss_pred             CcceEEEEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH-HHHHHHHH
Q psy12150        166 KSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMR-RAITCLQS  241 (456)
Q Consensus       166 ~~~~lIl~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr-~~~~~L~~  241 (456)
                      ..++++.++|.+.-++++|.+-+.   .+....|+-....++++-+++.-... .+-.+..+++.++|... .+.|.+..
T Consensus       287 ~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~-~~Vdl~~iAr~tpGfsGAdL~nl~NE  365 (596)
T COG0465         287 EGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLA-EDVDLKKIARGTPGFSGADLANLLNE  365 (596)
T ss_pred             CceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCC-CcCCHHHHhhhCCCcccchHhhhHHH
Confidence            234555556666667788875543   78888888899999999777654433 12234448888876332 23344434


Q ss_pred             HHHhh---CCCCCCHHHHHHHhC
Q psy12150        242 CARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       242 ~~~~~---~~~~It~~~v~~~~~  261 (456)
                      ++.++   ....|+..++.+...
T Consensus       366 Aal~aar~n~~~i~~~~i~ea~d  388 (596)
T COG0465         366 AALLAARRNKKEITMRDIEEAID  388 (596)
T ss_pred             HHHHHHHhcCeeEeccchHHHHH
Confidence            44433   566788877776553

>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=99.25  E-value=1.3e-10  Score=99.51  Aligned_cols=141  Identities=28%  Similarity=0.346  Sum_probs=91.2

Q ss_pred             cccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccC
Q psy12150         48 IEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASG  127 (456)
Q Consensus        48 vg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~  127 (456)
                      +|++..+..+...+......+++++||+|+|||++++.+++.+...  ...++.+++.......................
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP--GAPFLYLNASDLLEGLVVAELFGHFLVRLLFE   78 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcC--CCCeEEEehhhhhhhhHHHHHhhhhhHhHHHH
Confidence            3677888889888877555679999999999999999999987532  23566666665333222222111000000000


Q ss_pred             CCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc------cCcceEEEEecCcc--cccccccCCc-eEEEec
Q psy12150        128 FNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE------TKSTRFCLICNYVS--CIIQPLTSRC-SKFRFK  194 (456)
Q Consensus       128 ~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~------~~~~~lIl~~~~~~--kl~~~l~~r~-~~i~f~  194 (456)
                      ....    ....++++||++.+.......+.+.++..      ...+.+|++++...  .+.+.+.+|+ ..+.++
T Consensus        79 ~~~~----~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~~~~~~r~~~~i~~~  150 (151)
T cd00009          79 LAEK----AKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIP  150 (151)
T ss_pred             hhcc----CCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcChhHHhhhccEeecC
Confidence            0000    13459999999999777777777777765      34667777777655  6677788888 466554

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.

>PRK08485 DNA polymerase III subunit delta'; Validated

Probab=99.24  E-value=7.8e-11  Score=103.99  Aligned_cols=128  Identities=16%  Similarity=0.145  Sum_probs=109.4

Q ss_pred             CCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccc
Q psy12150        105 SDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPL  184 (456)
Q Consensus       105 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l  184 (456)
                      .+..+++++++.+......+.           ..+ +||++++.|+.+++++|++.+|+|+.+++|+++++.+.++.+.+
T Consensus        34 ~~~i~Vd~iReii~~~~~~~~-----------~~k-~iI~~a~~l~~~A~NaLLK~LEEPp~~~~fiL~t~~~~~llpTI  101 (206)
T PRK08485         34 KEEFKIEDAKEVIAEAYIAES-----------EEK-IIVIAAPSYGIEAQNALLKILEEPPKNICFIIVAKSKNLLLPTI  101 (206)
T ss_pred             CCCCCHHHHHHHHHHHhhCCC-----------CcE-EEEEchHhhCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCchHH
Confidence            335788888888776654431           223 56789999999999999999999999999999999999999999


Q ss_pred             cCCceE-------------EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy12150        185 TSRCSK-------------FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL  245 (456)
Q Consensus       185 ~~r~~~-------------i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~  245 (456)
                      +|||+.             +.|.+++.+++.++++. +.+++....+++.+.|+..+.|.+|.++...+....+
T Consensus       102 ~SRc~~~~~~~~~~~~~l~l~l~~l~~~~i~~~L~~-~~ke~~~~~~ea~~lIa~la~~s~r~~l~l~~q~l~~  174 (206)
T PRK08485        102 RSRLIIEKRKQKKPVKPLDLDLKKLDLKDIYEFLKE-LEKENKLSKEELKELIESLLKECVKYKIPLNEEELEY  174 (206)
T ss_pred             HhhheeccccccccccccccccCCCCHHHHHHHHHH-HHHcccccHHHHHHHHHHHHHHHHHHHcCccHHHHHH
Confidence            999985             77899999999999999 7788888899999999999999999987777766554

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.23  E-value=2.9e-10  Score=116.90  Aligned_cols=212  Identities=17%  Similarity=0.184  Sum_probs=137.1

Q ss_pred             CcccccccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHH
Q psy12150         43 TIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~  120 (456)
                      .+..++|....+..+...+..-  ...+++++|++|+||+++|+.++.....  ...+++.+||..... ..+...+...
T Consensus       137 ~~~~lig~s~~~~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~--~~~~~v~v~c~~~~~-~~~~~~lfg~  213 (445)
T TIGR02915       137 ALRGLITSSPGMQKICRTIEKIAPSDITVLLLGESGTGKEVLARALHQLSDR--KDKRFVAINCAAIPE-NLLESELFGY  213 (445)
T ss_pred             cccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhCCc--CCCCeEEEECCCCCh-HHHHHHhcCC
Confidence            4567888887777777666532  2234999999999999999999986433  234688899987432 2222221110


Q ss_pred             HHhhccCC--CCCCCC-CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------cc
Q psy12150        121 AQQTASGF--NQDGKP-CPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SC  179 (456)
Q Consensus       121 ~~~~~~~~--~~~~~~-~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~k  179 (456)
                      ....+.+.  ...|.. .++..+|||||++.|+...|..|++++++..           ..+.+|++++..       ..
T Consensus       214 ~~~~~~~~~~~~~g~~~~a~~gtl~l~~i~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~  293 (445)
T TIGR02915       214 EKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQDLKRMIAEGT  293 (445)
T ss_pred             CCCCcCCCccCCCCceeECCCCEEEEechhhCCHHHHHHHHHHHhhCeEEeCCCCceeeeceEEEEecCCCHHHHHHcCC
Confidence            00010000  000000 1345599999999999999999999998642           245777777643       22


Q ss_pred             ccccccCCce--EEEecCCCH--HHHHHH----HHHHHHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhC
Q psy12150        180 IIQPLTSRCS--KFRFKPLAE--NTMLTR----LQYICEQES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKG  247 (456)
Q Consensus       180 l~~~l~~r~~--~i~f~~~~~--~el~~~----l~~~~~~~~---~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~~  247 (456)
                      +.+.|..|..  .++++|+.+  +++..+    +...+.+.+   ..+++++++.|..+. +||+|++.+.++.++..+.
T Consensus       294 ~~~~L~~~l~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~i~~a~~~~~  373 (445)
T TIGR02915       294 FREDLFYRIAEISITIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALRALEAHAWPGNVRELENKVKRAVIMAE  373 (445)
T ss_pred             ccHHHHHHhccceecCCCchhchhhHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCC
Confidence            3333445544  566666653  344333    333343334   458999999998875 9999999999999988777


Q ss_pred             CCCCCHHHHH
Q psy12150        248 GEGIVNEDVL  257 (456)
Q Consensus       248 ~~~It~~~v~  257 (456)
                      +..|+.+++.
T Consensus       374 ~~~i~~~~l~  383 (445)
T TIGR02915       374 GNQITAEDLG  383 (445)
T ss_pred             CCcccHHHcC
Confidence            7789888763

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).

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

Probab=99.23  E-value=4.9e-10  Score=100.78  Aligned_cols=192  Identities=18%  Similarity=0.218  Sum_probs=132.1

Q ss_pred             hhccCCCCcccccccHHHHHHHHH----HHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChH
Q psy12150         36 VEKYRPKTIDDVIEQQEVVSVLKK----CLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ  111 (456)
Q Consensus        36 ~eky~P~~~~~ivg~~~~~~~l~~----~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~  111 (456)
                      +..+.|-.+.+++|-+...+.|.+    ++++....|+|++|..|+|||++++++..++.....  ..+|++..+.....
T Consensus        51 v~~~~~i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~gl--rLVEV~k~dl~~Lp  128 (287)
T COG2607          51 VPDPDPIDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGL--RLVEVDKEDLATLP  128 (287)
T ss_pred             CCCCCCcCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCC--eEEEEcHHHHhhHH
Confidence            345556678899998887766643    444444444999999999999999999999987665  58999887755444


Q ss_pred             HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH-HHHHHHHHHH----hccCcceEEEEecCcccccc----
Q psy12150        112 VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-AQAALRRTME----KETKSTRFCLICNYVSCIIQ----  182 (456)
Q Consensus       112 ~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~-~~~~Ll~~le----~~~~~~~lIl~~~~~~kl~~----  182 (456)
                      .+.+.++..   +            .+=|||+|+..+=..+ ....|...|+    ..|.+++|..++|.++-+..    
T Consensus       129 ~l~~~Lr~~---~------------~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHLl~e~~~d  193 (287)
T COG2607         129 DLVELLRAR---P------------EKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRRHLLPEDMKD  193 (287)
T ss_pred             HHHHHHhcC---C------------ceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCcccccHhhhh
Confidence            444443332   1            2339999998665444 3444444554    55677777777775432210    


Q ss_pred             ------------------cccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHH-----HHcCCCHHHHHHH
Q psy12150        183 ------------------PLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLV-----ETSGGDMRRAITC  238 (456)
Q Consensus       183 ------------------~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~-----~~s~gdlr~~~~~  238 (456)
                                        .+..|+. .+.|.|.+.++...++...+++.++.++++.++.=+     .+.+.+-|.+-+.
T Consensus       194 n~~~~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~~~l~~~~e~l~~eAl~WAt~rg~RSGR~A~QF  273 (287)
T COG2607         194 NEGSTGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKHFGLDISDEELHAEALQWATTRGGRSGRVAWQF  273 (287)
T ss_pred             CCCcccccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcCCCccHhHHHH
Confidence                              1234444 899999999999999999999999999876665533     3335567777777


Q ss_pred             HHHHHH
Q psy12150        239 LQSCAR  244 (456)
Q Consensus       239 L~~~~~  244 (456)
                      ++.++.
T Consensus       274 ~~~~~g  279 (287)
T COG2607         274 IRDLAG  279 (287)
T ss_pred             HHHHHh
Confidence            766553

>KOG0735|consensus

Probab=99.23  E-value=2.3e-10  Score=116.66  Aligned_cols=177  Identities=21%  Similarity=0.226  Sum_probs=114.8

Q ss_pred             CCcccccccHHHHHHHHHHHhc----------CC--CC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSG----------AD--LP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~----------~~--~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      -.|+++-|..++++.+.+.+.-          -.  .+ ++|+|||||||||.+|-+++...     +.+++.+.+.+.-
T Consensus       664 i~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~-----~~~fisvKGPElL  738 (952)
T KOG0735|consen  664 IRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNS-----NLRFISVKGPELL  738 (952)
T ss_pred             CCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhC-----CeeEEEecCHHHH
Confidence            4689999999888888877641          11  22 29999999999999999999874     4466665443310


Q ss_pred             --ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH-----------HHHHHHHHHHhc--cCcceEEEE
Q psy12150        109 --GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTMEKE--TKSTRFCLI  173 (456)
Q Consensus       109 --~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~-----------~~~~Ll~~le~~--~~~~~lIl~  173 (456)
                        -.+...+.+++....+     ...+||    |+|+||+|.+.+.           ..+.|+.-|+..  -..+.++.+
T Consensus       739 ~KyIGaSEq~vR~lF~rA-----~~a~PC----iLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aa  809 (952)
T KOG0735|consen  739 SKYIGASEQNVRDLFERA-----QSAKPC----ILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAA  809 (952)
T ss_pred             HHHhcccHHHHHHHHHHh-----hccCCe----EEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEe
Confidence              0111122333333332     234677    9999999998642           345555555422  233444444


Q ss_pred             ecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH
Q psy12150        174 CNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMR  233 (456)
Q Consensus       174 ~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr  233 (456)
                      +.++.-+.++|.+.+.   .+.++.|++.+..++++.....-.+ -++-.++.++..+.|.-.
T Consensus       810 TsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~-~~~vdl~~~a~~T~g~tg  871 (952)
T KOG0735|consen  810 TSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLK-DTDVDLECLAQKTDGFTG  871 (952)
T ss_pred             cCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCC-ccccchHHHhhhcCCCch
Confidence            4566677888887765   6888999999999999877653322 245567778888766433

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=99.22  E-value=4.8e-10  Score=116.04  Aligned_cols=213  Identities=16%  Similarity=0.181  Sum_probs=138.9

Q ss_pred             CcccccccHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHH
Q psy12150         43 TIDDVIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~  120 (456)
                      .+.+++|....+..+.+.+....  ..+++++|++||||+++|++++.....  ...+++.+||..... ..+...+...
T Consensus       136 ~~~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~s~~--~~~~~i~i~c~~~~~-~~~~~~lfg~  212 (469)
T PRK10923        136 PTTDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHSPR--AKAPFIALNMAAIPK-DLIESELFGH  212 (469)
T ss_pred             ccccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhcCCC--CCCCeEeeeCCCCCH-HHHHHHhcCC
Confidence            35678898877776666654322  224999999999999999999987533  234788999987422 2222222110


Q ss_pred             HHhhccCCCC--CCC-CCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------cc
Q psy12150        121 AQQTASGFNQ--DGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SC  179 (456)
Q Consensus       121 ~~~~~~~~~~--~~~-~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~k  179 (456)
                      ....+.+...  .+. ..+....+||||++.|+...|..|++++++..           .++++|++++..       ..
T Consensus       213 ~~g~~~~~~~~~~g~~~~a~~Gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~  292 (469)
T PRK10923        213 EKGAFTGANTIRQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQRVQEGK  292 (469)
T ss_pred             CCCCCCCCCcCCCCCeeECCCCEEEEeccccCCHHHHHHHHHHHhcCcEEeCCCCCeEEeeEEEEEeCCCCHHHHHHcCC
Confidence            0000000000  000 01234489999999999999999999998642           234777777642       23


Q ss_pred             ccccccCCce--EEEecCCCH--HHHHHHHHHHH----HHcCC---CCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhhC
Q psy12150        180 IIQPLTSRCS--KFRFKPLAE--NTMLTRLQYIC----EQESV---MCDFKALETLVET-SGGDMRRAITCLQSCARLKG  247 (456)
Q Consensus       180 l~~~l~~r~~--~i~f~~~~~--~el~~~l~~~~----~~~~~---~i~~~~l~~L~~~-s~gdlr~~~~~L~~~~~~~~  247 (456)
                      +.+.|..|+.  .+.++|+.+  +++..++...+    .+.+.   .++++++..|..+ .+||+|++.+.++.++..+.
T Consensus       293 ~~~~L~~~l~~~~i~~PpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNv~eL~~~i~~~~~~~~  372 (469)
T PRK10923        293 FREDLFHRLNVIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPETEAALTRLAWPGNVRQLENTCRWLTVMAA  372 (469)
T ss_pred             chHHHHHHhcceeecCCCcccchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCC
Confidence            4455666654  666677654  45554444443    33333   4899999999886 49999999999999988777


Q ss_pred             CCCCCHHHHHH
Q psy12150        248 GEGIVNEDVLE  258 (456)
Q Consensus       248 ~~~It~~~v~~  258 (456)
                      +..|+.+++..
T Consensus       373 ~~~i~~~~l~~  383 (469)
T PRK10923        373 GQEVLIQDLPG  383 (469)
T ss_pred             CCcccHHHCcH
Confidence            78899888753

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.21  E-value=6.6e-10  Score=118.21  Aligned_cols=214  Identities=15%  Similarity=0.099  Sum_probs=131.7

Q ss_pred             cccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC-----------C-------------------
Q psy12150         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-----------D-------------------   93 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~-----------~-------------------   93 (456)
                      |.+|+||+.++..+.-.+-.....++||+|++|+|||++++++++.+-.           .                   
T Consensus         3 f~~ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~~~~~~~~~~~~~~~   82 (633)
T TIGR02442         3 FTAIVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPEEWCEECRRKYRPSE   82 (633)
T ss_pred             cchhcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCccccChhhhhcccccc
Confidence            7899999999998888877766667999999999999999999988620           0                   


Q ss_pred             ccccceEEeeCCCC----cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc----
Q psy12150         94 MYRERILELNASDD----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET----  165 (456)
Q Consensus        94 ~~~~~~~e~n~~~~----~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~----  165 (456)
                      ....+++.+.++..    .+..++...+.    .........--..++..+++|||++.+....++.|+..|++..    
T Consensus        83 ~~~~pfv~~p~~~t~~~l~G~~d~~~~l~----~g~~~~~~G~L~~A~~GiL~lDEi~~l~~~~q~~Ll~~le~g~~~v~  158 (633)
T TIGR02442        83 QRPVPFVNLPLGATEDRVVGSLDIERALR----EGEKAFQPGLLAEAHRGILYIDEVNLLDDHLVDVLLDAAAMGVNRVE  158 (633)
T ss_pred             cCCCCeeeCCCCCcHHHcCCcccHHHHhh----cCCeeecCcceeecCCCeEEeChhhhCCHHHHHHHHHHHhcCCEEEE
Confidence            00123444333211    01111111111    0000000000001355699999999999999999999998642    


Q ss_pred             ---------CcceEEEEecCc-ccccccccCCce-EEEecCCC-HHHHHHHHHHHH------------------------
Q psy12150        166 ---------KSTRFCLICNYV-SCIIQPLTSRCS-KFRFKPLA-ENTMLTRLQYIC------------------------  209 (456)
Q Consensus       166 ---------~~~~lIl~~~~~-~kl~~~l~~r~~-~i~f~~~~-~~el~~~l~~~~------------------------  209 (456)
                               ..+.+|.+.|.. ..+.++|..|+. .+.+..+. .++..+++....                        
T Consensus       159 r~g~~~~~~~~~~lIat~np~eg~l~~~L~dR~~l~i~v~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~l~~~i  238 (633)
T TIGR02442       159 REGLSVSHPARFVLIGTMNPEEGDLRPQLLDRFGLCVDVAAPRDPEERVEIIRRRLAFDADPEAFAARWAAEQEELRNRI  238 (633)
T ss_pred             ECCceeeecCCeEEEEecCCCCCCCCHHHHhhcceEEEccCCCchHHHHHHHHHHHhhccCcHHHHHHhhhhHHHHHHHH
Confidence                     234555555532 346677888885 45555554 233333332210                        


Q ss_pred             -----HHcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHHH---hhCCCCCCHHHHHHHhC
Q psy12150        210 -----EQESVMCDFKALETLVETS---GG-DMRRAITCLQSCAR---LKGGEGIVNEDVLEVTG  261 (456)
Q Consensus       210 -----~~~~~~i~~~~l~~L~~~s---~g-dlr~~~~~L~~~~~---~~~~~~It~~~v~~~~~  261 (456)
                           ....+.++++.++.|+..+   +- .+|..+..++-+..   +.+...|+.+||..++.
T Consensus       239 ~~ar~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~  302 (633)
T TIGR02442       239 ARARSLLPSVRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAE  302 (633)
T ss_pred             HHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence                 0124678999988888765   22 46777766655433   33788999999987654

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.

>PRK15115 response regulator GlrR; Provisional

Probab=99.18  E-value=1.8e-09  Score=110.98  Aligned_cols=212  Identities=17%  Similarity=0.192  Sum_probs=131.2

Q ss_pred             cccccHHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHh
Q psy12150         46 DVIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQ  123 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~--~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~  123 (456)
                      .++|....+..+.+.+..  ....+++++|++|+||+++|+.+++....  ....++.+||.... ...+...+......
T Consensus       135 ~lig~s~~~~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~s~r--~~~~f~~i~c~~~~-~~~~~~~lfg~~~~  211 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNASPR--ASKPFIAINCGALP-EQLLESELFGHARG  211 (444)
T ss_pred             cccccCHHHHHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHhcCC--CCCCeEEEeCCCCC-HHHHHHHhcCCCcC
Confidence            466665555444443322  12234999999999999999999987543  23478899988742 22222221111101


Q ss_pred             hccCCC--CCCCC-CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------ccccc
Q psy12150        124 TASGFN--QDGKP-CPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCIIQ  182 (456)
Q Consensus       124 ~~~~~~--~~~~~-~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~kl~~  182 (456)
                      .+.+..  ..+.. .+...+|||||++.|+...|..|++++++..           ..+++|++++..       ..+.+
T Consensus       212 ~~~~~~~~~~g~~~~a~~gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~l~~~~~~~~f~~  291 (444)
T PRK15115        212 AFTGAVSNREGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRDLPKAMARGEFRE  291 (444)
T ss_pred             CCCCCccCCCCcEEECCCCEEEEEccccCCHHHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCCHHHHHHcCCccH
Confidence            100000  00000 1234599999999999999999999998643           145677776632       12223


Q ss_pred             cccCCce--EEEecCCCH--HHHHHHHHHH----HHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCCCC
Q psy12150        183 PLTSRCS--KFRFKPLAE--NTMLTRLQYI----CEQES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGGEG  250 (456)
Q Consensus       183 ~l~~r~~--~i~f~~~~~--~el~~~l~~~----~~~~~---~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~~~~~  250 (456)
                      .+..+..  .++++|+.+  +++..++...    +.+.+   ..+++++++.|..+. +||+|++.+.++.++..+.+..
T Consensus       292 ~l~~~l~~~~i~lPpLr~R~eDi~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~WpgNvreL~~~i~~~~~~~~~~~  371 (444)
T PRK15115        292 DLYYRLNVVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQLVNVIEQCVALTSSPV  371 (444)
T ss_pred             HHHHhhceeeecCCChHhccccHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCCCc
Confidence            3334433  455566543  3454443333    33333   248999999999987 9999999999999888777778


Q ss_pred             CCHHHHHHHh
Q psy12150        251 IVNEDVLEVT  260 (456)
Q Consensus       251 It~~~v~~~~  260 (456)
                      |+.+++...+
T Consensus       372 i~~~~l~~~~  381 (444)
T PRK15115        372 ISDALVEQAL  381 (444)
T ss_pred             cChhhhhhhh
Confidence            9988876433

>KOG0744|consensus

Probab=99.17  E-value=6.5e-10  Score=103.94  Aligned_cols=156  Identities=21%  Similarity=0.271  Sum_probs=101.4

Q ss_pred             cccccccHHHHHHHHHHHh-------cCCC-----Ce--EEEECCCCCcHHHHHHHHHHHhcC----CccccceEEeeCC
Q psy12150         44 IDDVIEQQEVVSVLKKCLS-------GADL-----PH--FLFYGPPGTGKTSTMIAACHQLFG----DMYRERILELNAS  105 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~-------~~~~-----~~--~Ll~G~~G~GKT~~a~~l~~~l~~----~~~~~~~~e~n~~  105 (456)
                      |+.++-....++++..+..       .+..     .+  +|+|||||||||++.+++|+.+.-    .......+|+|+.
T Consensus       141 WEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinsh  220 (423)
T KOG0744|consen  141 WESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSH  220 (423)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehh
Confidence            5555655666666666542       1111     12  899999999999999999998852    3344578899887


Q ss_pred             CCc---------ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH---------------HHHHHHHHH
Q psy12150        106 DDR---------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA---------------AQAALRRTM  161 (456)
Q Consensus       106 ~~~---------~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~---------------~~~~Ll~~l  161 (456)
                      ...         .+..+.+++.++....           ...-.|+|||++.+...               ..++|+.-|
T Consensus       221 sLFSKWFsESgKlV~kmF~kI~ELv~d~-----------~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQl  289 (423)
T KOG0744|consen  221 SLFSKWFSESGKLVAKMFQKIQELVEDR-----------GNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQL  289 (423)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHhCC-----------CcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHH
Confidence            521         1222334444443321           13347999999988542               245566555


Q ss_pred             Hhc--cCcceEEEEecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHH
Q psy12150        162 EKE--TKSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICE  210 (456)
Q Consensus       162 e~~--~~~~~lIl~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~  210 (456)
                      ++-  .+++.++.++|-...++.++..|.. +....+|+...+.++++.-..
T Consensus       290 DrlK~~~NvliL~TSNl~~siD~AfVDRADi~~yVG~Pt~~ai~~Ilkscie  341 (423)
T KOG0744|consen  290 DRLKRYPNVLILATSNLTDSIDVAFVDRADIVFYVGPPTAEAIYEILKSCIE  341 (423)
T ss_pred             HHhccCCCEEEEeccchHHHHHHHhhhHhhheeecCCccHHHHHHHHHHHHH
Confidence            532  3455555555566888999999987 677789999998888876654

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.16  E-value=1.2e-09  Score=112.93  Aligned_cols=213  Identities=17%  Similarity=0.191  Sum_probs=139.4

Q ss_pred             ccccccHHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHH
Q psy12150         45 DDVIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQ  122 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~--~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~  122 (456)
                      ..++|.......+.+.+..  +...++++.|++|+||+++++++++.....  ...++.+||.... .+.+...+.....
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a~~~~~vli~Ge~GtGK~~~A~~ih~~~~~~--~~~~~~~~c~~~~-~~~~~~~lfg~~~  210 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHSPRA--NGPFIALNMAAIP-KDLIESELFGHEK  210 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHhCcCCeEEEECCCCCCHHHHHHHHHHhCCCC--CCCeEEEeCCCCC-HHHHHHHhcCCCC
Confidence            4577776666665555432  222349999999999999999999865432  3478888988742 2222222211000


Q ss_pred             hhccCCCC--CCC-CCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------cccc
Q psy12150        123 QTASGFNQ--DGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCII  181 (456)
Q Consensus       123 ~~~~~~~~--~~~-~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~kl~  181 (456)
                      ..+.+...  .+. ..++..+|+|||++.|+.+.|..|++++++..           ..+.+|++++..       ..+.
T Consensus       211 ~~~~~~~~~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~f~  290 (463)
T TIGR01818       211 GAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEALVRQGKFR  290 (463)
T ss_pred             CCCCCcccCCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHHHHHHcCCcH
Confidence            00000000  000 00234589999999999999999999998642           135677777642       1233


Q ss_pred             ccccCCce--EEEecCCC--HHHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCCC
Q psy12150        182 QPLTSRCS--KFRFKPLA--ENTMLTRLQYICE----QES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGGE  249 (456)
Q Consensus       182 ~~l~~r~~--~i~f~~~~--~~el~~~l~~~~~----~~~---~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~~~~  249 (456)
                      +.|..|..  .++++|+.  .+++..++...++    +.+   ..+++++++.|..+. +||+|++.+.++.++..+.+.
T Consensus       291 ~~L~~rl~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~~~~~~~~~~~~  370 (463)
T TIGR01818       291 EDLFHRLNVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQLRWPGNVRQLENLCRWLTVMASGD  370 (463)
T ss_pred             HHHHHHhCcceecCCCcccchhhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCCC
Confidence            35555544  67788887  5677766655443    333   468999999999874 999999999999999887778


Q ss_pred             CCCHHHHHHHh
Q psy12150        250 GIVNEDVLEVT  260 (456)
Q Consensus       250 ~It~~~v~~~~  260 (456)
                      .|+.+++...+
T Consensus       371 ~i~~~~l~~~~  381 (463)
T TIGR01818       371 EVLVSDLPAEL  381 (463)
T ss_pred             cccHHhchHHH
Confidence            89998876443

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.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.15  E-value=1.1e-09  Score=109.37  Aligned_cols=188  Identities=18%  Similarity=0.185  Sum_probs=113.6

Q ss_pred             cccccHHHHHHHHHHHh-------c---CC--------CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         46 DVIEQQEVVSVLKKCLS-------G---AD--------LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~-------~---~~--------~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      .++||+++++.+..++.       .   ..        ..++||+||||+|||++++++++.+..     ++..+++...
T Consensus        78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~-----pf~~~da~~L  152 (413)
T TIGR00382        78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNV-----PFAIADATTL  152 (413)
T ss_pred             eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCC-----CeEEechhhc
Confidence            46899999988866651       1   11        135999999999999999999988743     3444444332


Q ss_pred             cC----hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--------------HHHHHHHHHHHhcc----
Q psy12150        108 RG----IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEKET----  165 (456)
Q Consensus       108 ~~----~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--------------~~~~~Ll~~le~~~----  165 (456)
                      ..    ..+....+........... ..    +...+|+|||+|.+..              ..|+.|++.|+...    
T Consensus       153 ~~~gyvG~d~e~~L~~~~~~~~~~l-~~----a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~  227 (413)
T TIGR00382       153 TEAGYVGEDVENILLKLLQAADYDV-EK----AQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVP  227 (413)
T ss_pred             cccccccccHHHHHHHHHHhCcccH-Hh----cccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecc
Confidence            11    0112222322222111100 00    1223999999999976              57899999996311    


Q ss_pred             ---------CcceEEEEecC-----------------c------------c---------------------cccccccC
Q psy12150        166 ---------KSTRFCLICNY-----------------V------------S---------------------CIIQPLTS  186 (456)
Q Consensus       166 ---------~~~~lIl~~~~-----------------~------------~---------------------kl~~~l~~  186 (456)
                               .++++|.|+|-                 +            .                     .+.|.|..
T Consensus       228 ~~~gr~~~~~~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEflg  307 (413)
T TIGR00382       228 PQGGRKHPYQEFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFIG  307 (413)
T ss_pred             cCCCccccCCCeEEEEcCCceeeecccccChHHHHHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHhC
Confidence                     12344444332                 0            0                     02355677


Q ss_pred             Cce-EEEecCCCHHHHHHHHHHH----HHH-------cCC--CCCHHHHHHHHHHc---CCCHHHHHHHHHHHH
Q psy12150        187 RCS-KFRFKPLAENTMLTRLQYI----CEQ-------ESV--MCDFKALETLVETS---GGDMRRAITCLQSCA  243 (456)
Q Consensus       187 r~~-~i~f~~~~~~el~~~l~~~----~~~-------~~~--~i~~~~l~~L~~~s---~gdlr~~~~~L~~~~  243 (456)
                      |.. ++.|.+++.+++.+++...    +++       .|+  .+++++++.|++.+   ..-.|.+.+.+++..
T Consensus       308 Rld~Iv~f~pL~~~~L~~Il~~~~n~l~kq~~~~l~~~gi~L~~t~~a~~~Ia~~~~~~~~GAR~Lr~iie~~l  381 (413)
T TIGR00382       308 RLPVIATLEKLDEEALIAILTKPKNALVKQYQALFKMDNVELDFEEEALKAIAKKALERKTGARGLRSIVEGLL  381 (413)
T ss_pred             CCCeEeecCCCCHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEECHHHHHHHHHhCCCCCCCchHHHHHHHHhh
Confidence            775 7889999999999988652    221       243  57899999999874   223555555555543

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.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.14  E-value=1.2e-09  Score=107.73  Aligned_cols=108  Identities=21%  Similarity=0.242  Sum_probs=78.2

Q ss_pred             CcEEEEEcCCCCccH------------HHHHHHHHHHHhcc----------CcceEEEEec----CcccccccccCCce-
Q psy12150        137 PFKIVILDEADSMTH------------AAQAALRRTMEKET----------KSTRFCLICN----YVSCIIQPLTSRCS-  189 (456)
Q Consensus       137 ~~~iviIDE~d~l~~------------~~~~~Ll~~le~~~----------~~~~lIl~~~----~~~kl~~~l~~r~~-  189 (456)
                      .+.||||||+|.+..            ..|..|+.++|...          .+..||+++.    .+..+.|.|..|+. 
T Consensus       247 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~~GAF~~~kp~DlIPEl~GR~Pi  326 (441)
T TIGR00390       247 QSGIIFIDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNTKYGMVKTDHILFIAAGAFQLAKPSDLIPELQGRFPI  326 (441)
T ss_pred             cCCEEEEEchhhhcccCCCCCCCCCccchhccccccccCceeeecceeEECCceeEEecCCcCCCChhhccHHHhCccce
Confidence            567999999999863            25888999998522          2334544432    35678899999987 


Q ss_pred             EEEecCCCHHHHHHHHH----HH-------HHHcCC--CCCHHHHHHHHHHc--------CCCHHHHHHHHHHHHH
Q psy12150        190 KFRFKPLAENTMLTRLQ----YI-------CEQESV--MCDFKALETLVETS--------GGDMRRAITCLQSCAR  244 (456)
Q Consensus       190 ~i~f~~~~~~el~~~l~----~~-------~~~~~~--~i~~~~l~~L~~~s--------~gdlr~~~~~L~~~~~  244 (456)
                      ++.+.+++.+++.++|.    ..       ++.+|+  .|+++++..|++.+        +--.|.+...++++..
T Consensus       327 ~v~L~~L~~edL~rILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtilE~~l~  402 (441)
T TIGR00390       327 RVELQALTTDDFERILTEPKNSLIKQYKALMKTEGVNIEFSDEAIKRIAELAYNVNEKTENIGARRLHTVLERLLE  402 (441)
T ss_pred             EEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEeHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHH
Confidence            89999999999998882    22       234564  47899999999865        3346777777777654

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.

>KOG0732|consensus

Probab=99.13  E-value=1.1e-09  Score=117.72  Aligned_cols=192  Identities=18%  Similarity=0.180  Sum_probs=135.8

Q ss_pred             CCCcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC-
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD-  106 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~-  106 (456)
                      -.+|+++-|.+.+++.|++.+-            +-.+|. +|+|||||||||..+++++..+....-++.+..-.+.+ 
T Consensus       261 ~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD~  340 (1080)
T KOG0732|consen  261 SVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGADC  340 (1080)
T ss_pred             ccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCchh
Confidence            3469999999999999988762            122333 99999999999999999999887654444443333333 


Q ss_pred             -CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH-----------HHHHHHHHHHhc--cCcceEEE
Q psy12150        107 -DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTMEKE--TKSTRFCL  172 (456)
Q Consensus       107 -~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~-----------~~~~Ll~~le~~--~~~~~lIl  172 (456)
                       ..+++.....+.-+...+...     .|    .|+++||+|.|.+-           ....|+..|..-  .+.+++|-
T Consensus       341 lskwvgEaERqlrllFeeA~k~-----qP----SIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGldsRgqVvvig  411 (1080)
T KOG0732|consen  341 LSKWVGEAERQLRLLFEEAQKT-----QP----SIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIG  411 (1080)
T ss_pred             hccccCcHHHHHHHHHHHHhcc-----Cc----eEEeccccccccccccchHHHhhhhHHHHHHHhccCCCCCCceEEEc
Confidence             122333334444333333221     22    39999999988542           123456566533  24577777


Q ss_pred             EecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q psy12150        173 ICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQS  241 (456)
Q Consensus       173 ~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~  241 (456)
                      ++|++..+.+++++.+.   .+.|+-++.+....++.-+-.+..-.+....+..|++.+.|..+.-+..|-.
T Consensus       412 ATnRpda~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaLCT  483 (1080)
T KOG0732|consen  412 ATNRPDAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKALCT  483 (1080)
T ss_pred             ccCCccccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHHHH
Confidence            88899999999987765   7999999999999998888777778899999999999998877776666543

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.11  E-value=2.3e-09  Score=113.01  Aligned_cols=127  Identities=14%  Similarity=0.141  Sum_probs=88.2

Q ss_pred             CCcEEEEEcCCCCccHHHHHHHHHHHHhcc---------------------CcceEEEEecCc--ccccccccCCce---
Q psy12150        136 PPFKIVILDEADSMTHAAQAALRRTMEKET---------------------KSTRFCLICNYV--SCIIQPLTSRCS---  189 (456)
Q Consensus       136 ~~~~iviIDE~d~l~~~~~~~Ll~~le~~~---------------------~~~~lIl~~~~~--~kl~~~l~~r~~---  189 (456)
                      ++..+++|||++.|....|..|++.|++..                     -.+++|++++..  ..+.++|.+|+.   
T Consensus       216 AngGtL~Ldei~~L~~~~q~~Ll~~L~~~~i~~~g~~e~~~~~~~~~~~ip~dvrvIa~~~~~~l~~l~~~l~~rf~~y~  295 (608)
T TIGR00764       216 AHKGVLYIDEIKTMPLEVQQYLLTALQDKKFPITGQSENSSGAMVRTEPVPCDFILVASGNLDDLEGMHPALRSRIRGYG  295 (608)
T ss_pred             CCCCEEEEEChHhCCHHHHHHHHHHHHhCcEEecCccccccccccCCCCCccceEEEEECCHHHHhhcCHHHHHHhcCCe
Confidence            455799999999999999999999996431                     134577777643  567788888876   


Q ss_pred             -EEEecC---CCHHH---HHHHHHHHHHHcC--CCCCHHHHHHHHHHc----------CCCHHHHHHHHHHHHHhh---C
Q psy12150        190 -KFRFKP---LAENT---MLTRLQYICEQES--VMCDFKALETLVETS----------GGDMRRAITCLQSCARLK---G  247 (456)
Q Consensus       190 -~i~f~~---~~~~e---l~~~l~~~~~~~~--~~i~~~~l~~L~~~s----------~gdlr~~~~~L~~~~~~~---~  247 (456)
                       .+.|..   .+.+.   +..++.+.+++.|  ..++++++..|++..          ..+.|.+-+.++.+...+   +
T Consensus       296 v~v~~~~~~~~~~e~~~~~~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~  375 (608)
T TIGR00764       296 YEVYMKDTMPDTPENRDKLVQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSG  375 (608)
T ss_pred             EEEEeeccCCCCHHHHHHHHHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcC
Confidence             345533   23433   4555666666663  358999999988532          245788888888775444   4


Q ss_pred             CCCCCHHHHHHHhCC
Q psy12150        248 GEGIVNEDVLEVTGV  262 (456)
Q Consensus       248 ~~~It~~~v~~~~~~  262 (456)
                      ...|+.++|.+++..
T Consensus       376 ~~~I~~ehV~~Ai~~  390 (608)
T TIGR00764       376 KVYVTAEHVLKAKKL  390 (608)
T ss_pred             CceecHHHHHHHHHH
Confidence            568999999887653

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.11  E-value=3.5e-09  Score=109.27  Aligned_cols=212  Identities=17%  Similarity=0.188  Sum_probs=132.7

Q ss_pred             cccccccHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHH
Q psy12150         44 IDDVIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFA  121 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~  121 (456)
                      +..++|....+..+.+.+....  ..+++++|++|+||+++++.++.....  ...+++.+||..... ..+...+....
T Consensus       142 ~~~ii~~S~~~~~~~~~~~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~--~~~~~~~i~c~~~~~-~~~~~~lfg~~  218 (457)
T PRK11361        142 WGHILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNSRR--AKGPFIKVNCAALPE-SLLESELFGHE  218 (457)
T ss_pred             ccceecccHHHhHHHHHHHHHcCCCcEEEEEcCCCccHHHHHHHHHHhCCC--CCCCeEEEECCCCCH-HHHHHHhcCCC
Confidence            3457777666655555543322  234999999999999999999886433  234788899887432 22222111100


Q ss_pred             HhhccCCC--CCCC-CCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------ccc
Q psy12150        122 QQTASGFN--QDGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCI  180 (456)
Q Consensus       122 ~~~~~~~~--~~~~-~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~kl  180 (456)
                      ...+.+..  ..+. ..++..+|||||++.|+...|..|++++++..           .++++|++++..       ..+
T Consensus       219 ~~~~~~~~~~~~g~~~~a~~gtl~ld~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~l~~~~~~g~~  298 (457)
T PRK11361        219 KGAFTGAQTLRQGLFERANEGTLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGTF  298 (457)
T ss_pred             CCCCCCCCCCCCCceEECCCCEEEEechhhCCHHHHHHHHHHHhcCcEEeCCCCceeeeceEEEEeCCCCHHHHHHcCCc
Confidence            00000000  0000 01345599999999999999999999997532           235777777643       123


Q ss_pred             cccccCCce--EEEecCCCH--HHHHHHH----HHHHHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCC
Q psy12150        181 IQPLTSRCS--KFRFKPLAE--NTMLTRL----QYICEQES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGG  248 (456)
Q Consensus       181 ~~~l~~r~~--~i~f~~~~~--~el~~~l----~~~~~~~~---~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~~~  248 (456)
                      .+.+..+..  .+.++|+.+  +++..++    .....+.+   ..+++++++.|..+. +||+|++.+.++.++..+.+
T Consensus       299 ~~~l~~~l~~~~i~~ppLreR~~di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNv~eL~~~~~~~~~~~~~  378 (457)
T PRK11361        299 REDLFYRLNVIHLILPPLRDRREDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWPGNIRELSNVIERAVVMNSG  378 (457)
T ss_pred             hHHHHHHhccceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHcCCCCCcHHHHHHHHHHHHHhCCC
Confidence            333444433  556666652  4444333    33333323   358999999998865 99999999999999887777


Q ss_pred             CCCCHHHHHH
Q psy12150        249 EGIVNEDVLE  258 (456)
Q Consensus       249 ~~It~~~v~~  258 (456)
                      ..|+.+++..
T Consensus       379 ~~i~~~~l~~  388 (457)
T PRK11361        379 PIIFSEDLPP  388 (457)
T ss_pred             CcccHHHChH
Confidence            7898888754

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

Probab=99.09  E-value=3.5e-09  Score=100.06  Aligned_cols=217  Identities=15%  Similarity=0.083  Sum_probs=135.7

Q ss_pred             ccccHHH---HHHHHHHH---hcCCCCeEEEECCCCCcHHHHHHHHHHHhcC----CccccceEEeeCCCCcChHHHHHH
Q psy12150         47 VIEQQEV---VSVLKKCL---SGADLPHFLFYGPPGTGKTSTMIAACHQLFG----DMYRERILELNASDDRGIQVIRDK  116 (456)
Q Consensus        47 ivg~~~~---~~~l~~~l---~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~----~~~~~~~~e~n~~~~~~~~~i~~~  116 (456)
                      .+|.+..   ++.|...+   +..++|+++|+|++|.|||++++.+.+....    +....+++.+.+....+...+...
T Consensus        36 WIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~  115 (302)
T PF05621_consen   36 WIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSA  115 (302)
T ss_pred             eecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHH
Confidence            4665544   34444544   4567788999999999999999999986532    112346677766665555555555


Q ss_pred             HHHHHHhhccCCCCCCCC---------CCCcEEEEEcCCCCccH---HHHHHH---HHHHHhccCcceEEEEecCc---c
Q psy12150        117 VKTFAQQTASGFNQDGKP---------CPPFKIVILDEADSMTH---AAQAAL---RRTMEKETKSTRFCLICNYV---S  178 (456)
Q Consensus       117 l~~~~~~~~~~~~~~~~~---------~~~~~iviIDE~d~l~~---~~~~~L---l~~le~~~~~~~lIl~~~~~---~  178 (456)
                      +-.....+..........         .-+-+++||||++++..   ..|..+   +++|.+.-.-+++.+.+...   -
T Consensus       116 IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al  195 (302)
T PF05621_consen  116 ILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRAL  195 (302)
T ss_pred             HHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHh
Confidence            444433332221110000         01456999999999732   233333   34454444444444433322   2


Q ss_pred             cccccccCCceEEEecCCCHH-HHHHHHHHHHHHc----CCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---CCC
Q psy12150        179 CIIQPLTSRCSKFRFKPLAEN-TMLTRLQYICEQE----SVM-CDFKALETLVETSGGDMRRAITCLQSCARLK---GGE  249 (456)
Q Consensus       179 kl~~~l~~r~~~i~f~~~~~~-el~~~l~~~~~~~----~~~-i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~---~~~  249 (456)
                      .-++++.+|+..+.+++...+ +....|...-..-    .-. -+++....|...|+|.+..+.+.+..++..+   |.+
T Consensus       196 ~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~ll~~aA~~AI~sG~E  275 (302)
T PF05621_consen  196 RTDPQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRLLNAAAIAAIRSGEE  275 (302)
T ss_pred             ccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHHHHHHHHHHHhcCCc
Confidence            345789999999999888754 4555554443321    112 3567778999999999999999999988877   678


Q ss_pred             CCCHHHHHHHhCCC
Q psy12150        250 GIVNEDVLEVTGVI  263 (456)
Q Consensus       250 ~It~~~v~~~~~~~  263 (456)
                      .||.+.+..+-=..
T Consensus       276 ~It~~~l~~~~~~~  289 (302)
T PF05621_consen  276 RITREILDKIDWVP  289 (302)
T ss_pred             eecHHHHhhCCCcC
Confidence            89999887754433

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

>KOG0735|consensus

Probab=99.09  E-value=1.6e-08  Score=103.56  Aligned_cols=269  Identities=16%  Similarity=0.149  Sum_probs=169.1

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEE
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVIL  143 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviI  143 (456)
                      .++++|+||+|+|||.+++++++.+..+ ....+..++|+...+  .+.++..+..........     .|+    +|++
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~k~-~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~~~-----~PS----iIvL  500 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYSKD-LIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWY-----APS----IIVL  500 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhccc-cceEEEEEechhccchhHHHHHHHHHHHHHHHHhh-----CCc----EEEE
Confidence            3459999999999999999999998743 334555667776443  455666665554443322     222    9999


Q ss_pred             cCCCCccHH----------HHHHHH----HHHH---hccCcceEEEEecCcccccccccCC--ce-EEEecCCCHHHHHH
Q psy12150        144 DEADSMTHA----------AQAALR----RTME---KETKSTRFCLICNYVSCIIQPLTSR--CS-KFRFKPLAENTMLT  203 (456)
Q Consensus       144 DE~d~l~~~----------~~~~Ll----~~le---~~~~~~~lIl~~~~~~kl~~~l~~r--~~-~i~f~~~~~~el~~  203 (456)
                      |++|.+...          ..+.+.    +.+.   +....+.+|++.+....+.+.|.+.  ++ ++.+++|...+...
T Consensus       501 Ddld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~  580 (952)
T KOG0735|consen  501 DDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPAPAVTRRKE  580 (952)
T ss_pred             cchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCCcchhHHHH
Confidence            999988541          111121    2222   2233456777777666666665444  33 78899999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHhh-------CCCCCCHHHHHHHhCCCCHHHHHHHHcc-
Q psy12150        204 RLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCARLK-------GGEGIVNEDVLEVTGVIPKPWIEKLLKV-  274 (456)
Q Consensus       204 ~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~~~-------~~~~It~~~v~~~~~~~~~~~i~~l~~~-  274 (456)
                      +|...+++.......+.++.++..++| +.+.+....+++..++       +.+.+|.+++.+.+....+..+..+-.. 
T Consensus       581 IL~~~~s~~~~~~~~~dLd~ls~~TEGy~~~DL~ifVeRai~~a~leris~~~klltke~f~ksL~~F~P~aLR~ik~~k  660 (952)
T KOG0735|consen  581 ILTTIFSKNLSDITMDDLDFLSVKTEGYLATDLVIFVERAIHEAFLERISNGPKLLTKELFEKSLKDFVPLALRGIKLVK  660 (952)
T ss_pred             HHHHHHHhhhhhhhhHHHHHHHHhcCCccchhHHHHHHHHHHHHHHHHhccCcccchHHHHHHHHHhcChHHhhhccccc
Confidence            999999988777788889999999988 4556666666665443       2347888999888877766655544222 


Q ss_pred             ---------cchHHHHHHHHHHHHhccCHHHHHHHHHHHHH---HHhcCCHHHHHHH------------------HHHHH
Q psy12150        275 ---------DSFQVLEKYIEDLILEAYSATQLFDQFHDIVM---LASSLSDKQKALF------------------KALET  324 (456)
Q Consensus       275 ---------~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~---~~~~~~~~~~~l~------------------~~~~~  324 (456)
                               +-..++...+.+.++-.-.--.|+.+...=+-   +=..+.+-.+.++                  +-+..
T Consensus       661 ~tgi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~K  740 (952)
T KOG0735|consen  661 STGIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSK  740 (952)
T ss_pred             cCCCCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHH
Confidence                     44567777777776532221223322211000   0001111111111                  45667


Q ss_pred             HHhcchHHHHHHHHHHhhhh
Q psy12150        325 LVETSGGDMRRAITCLQSCA  344 (456)
Q Consensus       325 ~~~~~~gd~r~~~~~lq~~~  344 (456)
                      .+..|....|.+++.-|++.
T Consensus       741 yIGaSEq~vR~lF~rA~~a~  760 (952)
T KOG0735|consen  741 YIGASEQNVRDLFERAQSAK  760 (952)
T ss_pred             HhcccHHHHHHHHHHhhccC
Confidence            77888888888888888774

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.07  E-value=2.3e-09  Score=105.76  Aligned_cols=108  Identities=22%  Similarity=0.237  Sum_probs=78.2

Q ss_pred             CcEEEEEcCCCCccH------------HHHHHHHHHHHhcc----------CcceEEEEec----CcccccccccCCce-
Q psy12150        137 PFKIVILDEADSMTH------------AAQAALRRTMEKET----------KSTRFCLICN----YVSCIIQPLTSRCS-  189 (456)
Q Consensus       137 ~~~iviIDE~d~l~~------------~~~~~Ll~~le~~~----------~~~~lIl~~~----~~~kl~~~l~~r~~-  189 (456)
                      ...||||||+|.+..            ..|..|+.++|...          .+..||+++.    .+..++|.|..|+. 
T Consensus       249 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~~v~~k~~~i~T~~ILFI~~GAF~~~kp~DlIPEl~GR~Pi  328 (443)
T PRK05201        249 QNGIVFIDEIDKIAARGGSSGPDVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILFIASGAFHVSKPSDLIPELQGRFPI  328 (443)
T ss_pred             cCCEEEEEcchhhcccCCCCCCCCCccchhcccccccccceeeecceeEECCceeEEecCCcCCCChhhccHHHhCccce
Confidence            567999999999853            25888999988522          2334444432    35678899999987 


Q ss_pred             EEEecCCCHHHHHHHHHH----HH-------HHcCC--CCCHHHHHHHHHHc--------CCCHHHHHHHHHHHHH
Q psy12150        190 KFRFKPLAENTMLTRLQY----IC-------EQESV--MCDFKALETLVETS--------GGDMRRAITCLQSCAR  244 (456)
Q Consensus       190 ~i~f~~~~~~el~~~l~~----~~-------~~~~~--~i~~~~l~~L~~~s--------~gdlr~~~~~L~~~~~  244 (456)
                      ++.+.+++.+++.++|..    ..       +.+|+  .|++++++.|++.+        +--.|.+...++++..
T Consensus       329 ~v~L~~L~~~dL~~ILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtI~E~~L~  404 (443)
T PRK05201        329 RVELDALTEEDFVRILTEPKASLIKQYQALLATEGVTLEFTDDAIRRIAEIAYQVNEKTENIGARRLHTVMEKLLE  404 (443)
T ss_pred             EEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHH
Confidence            899999999999988832    33       33565  57899999999865        3346777777777654

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=99.07  E-value=4.6e-09  Score=99.54  Aligned_cols=207  Identities=19%  Similarity=0.180  Sum_probs=138.2

Q ss_pred             CCcccccccHHHHHHHHHHHhcCCC--CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHH
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGADL--PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~~~--~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~  119 (456)
                      ..|+.+++....++.+....++-.+  .++||+|+.||||..+|++++..-..  ...+++-+||..... +.....+. 
T Consensus       201 ~~F~~~v~~S~~mk~~v~qA~k~AmlDAPLLI~GeTGTGKdLlAkaCH~~S~R--~~~pFlalNCA~lPe-~~aEsElF-  276 (511)
T COG3283         201 SGFEQIVAVSPKMKHVVEQAQKLAMLDAPLLITGETGTGKDLLAKACHLASPR--HSKPFLALNCASLPE-DAAESELF-  276 (511)
T ss_pred             cchHHHhhccHHHHHHHHHHHHhhccCCCeEEecCCCchHHHHHHHHhhcCcc--cCCCeeEeecCCCch-hHhHHHHh-
Confidence            4688999988888777666554322  24999999999999999999876433  344788999986322 11111111 


Q ss_pred             HHHhhccCCCCCCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------
Q psy12150        120 FAQQTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------  177 (456)
Q Consensus       120 ~~~~~~~~~~~~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------  177 (456)
                        ....   ...++++    +....|++||+..|++.-|..|++++.+.+           .++++|+++...       
T Consensus       277 --G~ap---g~~gk~GffE~AngGTVlLDeIgEmSp~lQaKLLRFL~DGtFRRVGee~Ev~vdVRVIcatq~nL~~lv~~  351 (511)
T COG3283         277 --GHAP---GDEGKKGFFEQANGGTVLLDEIGEMSPRLQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQVNLVELVQK  351 (511)
T ss_pred             --cCCC---CCCCccchhhhccCCeEEeehhhhcCHHHHHHHHHHhcCCceeecCCcceEEEEEEEEecccccHHHHHhc
Confidence              1111   0122221    455589999999999999999999998654           246677666432       


Q ss_pred             ccccccccCCceEEEe--cCCCH--H----HHHHHHHHHHHHcCC---CCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHh
Q psy12150        178 SCIIQPLTSRCSKFRF--KPLAE--N----TMLTRLQYICEQESV---MCDFKALETLVET-SGGDMRRAITCLQSCARL  245 (456)
Q Consensus       178 ~kl~~~l~~r~~~i~f--~~~~~--~----el~~~l~~~~~~~~~---~i~~~~l~~L~~~-s~gdlr~~~~~L~~~~~~  245 (456)
                      .++-..+.-|..++.+  +|+.+  +    -..-++++++.+-|+   +++++.+..|.++ ++||+|++-|.+-.++..
T Consensus       352 g~fReDLfyRLNVLtl~~PpLRer~~di~pL~e~Fv~q~s~elg~p~pkl~~~~~~~L~~y~WpGNVRqL~N~iyRA~s~  431 (511)
T COG3283         352 GKFREDLFYRLNVLTLNLPPLRERPQDIMPLAELFVQQFSDELGVPRPKLAADLLTVLTRYAWPGNVRQLKNAIYRALTL  431 (511)
T ss_pred             CchHHHHHHHhheeeecCCccccCcccchHHHHHHHHHHHHHhCCCCCccCHHHHHHHHHcCCCccHHHHHHHHHHHHHH
Confidence            2233334444443333  33322  1    234456677776664   5788888888875 699999999999999888


Q ss_pred             hCCCCCCHHHHH
Q psy12150        246 KGGEGIVNEDVL  257 (456)
Q Consensus       246 ~~~~~It~~~v~  257 (456)
                      ..+..++.+++.
T Consensus       432 ~Eg~~l~i~~i~  443 (511)
T COG3283         432 LEGYELRIEDIL  443 (511)
T ss_pred             hccCccchhhcc
Confidence            888888888875

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=99.05  E-value=5.1e-09  Score=110.13  Aligned_cols=126  Identities=16%  Similarity=0.229  Sum_probs=84.7

Q ss_pred             CCcEEEEEcCCCCccHHHHHHHHHHHHhcc---------------------CcceEEEEecCc--ccccccccCCce---
Q psy12150        136 PPFKIVILDEADSMTHAAQAALRRTMEKET---------------------KSTRFCLICNYV--SCIIQPLTSRCS---  189 (456)
Q Consensus       136 ~~~~iviIDE~d~l~~~~~~~Ll~~le~~~---------------------~~~~lIl~~~~~--~kl~~~l~~r~~---  189 (456)
                      ++..++|+||++.|....|..|++.|++..                     -.+.+|++++..  ..+.+.|.+|+.   
T Consensus       225 AnGGtL~LDei~~L~~~~q~~Llr~L~~~~i~i~g~~e~~~~~~~~~~~ip~dvrvI~a~~~~ll~~~dpdL~~rfk~~~  304 (637)
T PRK13765        225 AHKGVLFIDEINTLDLESQQSLLTAMQEKKFPITGQSERSSGAMVRTEPVPCDFIMVAAGNLDALENMHPALRSRIKGYG  304 (637)
T ss_pred             CCCcEEEEeChHhCCHHHHHHHHHHHHhCCEEecccccccccccCCCcceeeeeEEEEecCcCHHHhhhHHHHHHhccCe
Confidence            445799999999999999999999986432                     134677777653  345667777763   


Q ss_pred             -EEEecC---CCHHHHHHHHHHHHHH---c--CCCCCHHHHHHHHHHc---CCC-------HHHHHHHHHHHHHhh---C
Q psy12150        190 -KFRFKP---LAENTMLTRLQYICEQ---E--SVMCDFKALETLVETS---GGD-------MRRAITCLQSCARLK---G  247 (456)
Q Consensus       190 -~i~f~~---~~~~el~~~l~~~~~~---~--~~~i~~~~l~~L~~~s---~gd-------lr~~~~~L~~~~~~~---~  247 (456)
                       .++|..   -+.+....+++.+++.   .  -..++++++..|++..   .|+       .|.+.+.+..+..++   +
T Consensus       305 v~v~f~~~~~d~~e~~~~~~~~iaqe~~~~G~l~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~  384 (637)
T PRK13765        305 YEVYMRDTMEDTPENRRKLVRFVAQEVKRDGKIPHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEG  384 (637)
T ss_pred             EEEEcccccCCCHHHHHHHHHHHHHHhhhccCCCCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhc
Confidence             466654   3356666666655543   2  2368999999988743   232       566666666655444   4


Q ss_pred             CCCCCHHHHHHHhC
Q psy12150        248 GEGIVNEDVLEVTG  261 (456)
Q Consensus       248 ~~~It~~~v~~~~~  261 (456)
                      .+.|+.++|.++..
T Consensus       385 ~~~i~~~~v~~a~~  398 (637)
T PRK13765        385 AELTTAEHVLEAKK  398 (637)
T ss_pred             cceecHHHHHHHHH
Confidence            56788888877653

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.04  E-value=2.7e-09  Score=102.64  Aligned_cols=165  Identities=15%  Similarity=0.052  Sum_probs=103.5

Q ss_pred             ccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH-
Q psy12150         38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK-  116 (456)
Q Consensus        38 ky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~-  116 (456)
                      .|.|..-.+.+..+.....+..++..+  .+++|.|+||||||++++.+++.++.     +++.+++.......++... 
T Consensus        38 ~~~p~~d~~y~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~l~~-----~~~rV~~~~~l~~~DliG~~  110 (327)
T TIGR01650        38 EHVPDIDPAYLFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAARLNW-----PCVRVNLDSHVSRIDLVGKD  110 (327)
T ss_pred             CCCCCCCCCccCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHHHCC-----CeEEEEecCCCChhhcCCCc
Confidence            444554445666667777777777543  36999999999999999999999864     4455555443222211110 


Q ss_pred             ---HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHh--------------ccCcceEEEEecCc--
Q psy12150        117 ---VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEK--------------ETKSTRFCLICNYV--  177 (456)
Q Consensus       117 ---l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~--------------~~~~~~lIl~~~~~--  177 (456)
                         ++.-.....+..++-........++++||++...++.+..|...|+.              +.+..++|.+.|..  
T Consensus       111 ~~~l~~g~~~~~f~~GpL~~A~~~g~illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~  190 (327)
T TIGR01650       111 AIVLKDGKQITEFRDGILPWALQHNVALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGL  190 (327)
T ss_pred             eeeccCCcceeEEecCcchhHHhCCeEEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCc
Confidence               00000000000000000001234799999999999999998888873              12345567777753  


Q ss_pred             ----------ccccccccCCce-EEEecCCCHHHHHHHHHHHH
Q psy12150        178 ----------SCIIQPLTSRCS-KFRFKPLAENTMLTRLQYIC  209 (456)
Q Consensus       178 ----------~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~  209 (456)
                                ..+..++..|+. ++.+..++.++-.+++...+
T Consensus       191 Gd~~G~y~Gt~~l~~A~lDRF~i~~~~~Yp~~e~E~~Il~~~~  233 (327)
T TIGR01650       191 GDTTGLYHGTQQINQAQMDRWSIVTTLNYLEHDNEAAIVLAKA  233 (327)
T ss_pred             CCCCcceeeeecCCHHHHhheeeEeeCCCCCHHHHHHHHHhhc
Confidence                      235678899997 56899999999999887654

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.

>KOG0651|consensus

Probab=99.01  E-value=1.9e-09  Score=100.41  Aligned_cols=174  Identities=21%  Similarity=0.258  Sum_probs=105.3

Q ss_pred             CcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC--
Q psy12150         43 TIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD--  107 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~--  107 (456)
                      +|+++-|.-..+..+.+.+.            +-.+|. ++||||||+|||.++++++..+..+     ++-+.++..  
T Consensus       130 s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~n-----fl~v~ss~lv~  204 (388)
T KOG0651|consen  130 SFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVN-----FLKVVSSALVD  204 (388)
T ss_pred             CHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCc-----eEEeeHhhhhh
Confidence            78888888888888887763            223343 9999999999999999999998653     444333321  


Q ss_pred             cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHhc-----cCcceEE
Q psy12150        108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEKE-----TKSTRFC  171 (456)
Q Consensus       108 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~~-----~~~~~lI  171 (456)
                      ...++....+++....+...     .||    ++|+||+|....           ..+..|.++++.-     ...+.+|
T Consensus       205 kyiGEsaRlIRemf~yA~~~-----~pc----iifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~I  275 (388)
T KOG0651|consen  205 KYIGESARLIRDMFRYAREV-----IPC----IIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTI  275 (388)
T ss_pred             hhcccHHHHHHHHHHHHhhh-----Cce----EEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccEE
Confidence            11122223333332222111     234    999999998742           2355666665432     2457799


Q ss_pred             EEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHcCC
Q psy12150        172 LICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQ--ESVMCDFKALETLVETSGG  230 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~--~~~~i~~~~l~~L~~~s~g  230 (456)
                      +++|++..++++|.+-+.   .++.+-|++.....+++-....  ..-.++.+++-.+.+-.+|
T Consensus       276 matNrpdtLdpaLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~~d~f~g  339 (388)
T KOG0651|consen  276 MATNRPDTLDPALLRPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKLVDGFNG  339 (388)
T ss_pred             EecCCccccchhhcCCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHHHhccCh
Confidence            999999999999987665   4555544444433333322221  1124566665555554444

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.00  E-value=1.5e-08  Score=103.99  Aligned_cols=211  Identities=15%  Similarity=0.165  Sum_probs=130.3

Q ss_pred             cccccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHh
Q psy12150         46 DVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQ  123 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~  123 (456)
                      .++|.......+.+.+..-  ...+++++|++|+||++++++++.....  ...+++.+||.... ...+...+......
T Consensus       140 ~lig~s~~~~~~~~~i~~~~~~~~~vli~ge~g~gk~~~a~~ih~~s~~--~~~~~i~~~c~~~~-~~~~~~~lfg~~~~  216 (441)
T PRK10365        140 GMVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKELVARAIHASSAR--SEKPLVTLNCAALN-ESLLESELFGHEKG  216 (441)
T ss_pred             ceEecCHHHHHHHHHHhhccCCCCeEEEEecCCCCHHHHHHHHHHcCCC--CCCCeeeeeCCCCC-HHHHHHHhcCCCCC
Confidence            3566555555544443321  2234999999999999999999986433  23478999998643 23232222111100


Q ss_pred             hccCCC--CCCC-CCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------ccccc
Q psy12150        124 TASGFN--QDGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCIIQ  182 (456)
Q Consensus       124 ~~~~~~--~~~~-~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~kl~~  182 (456)
                      .+.+..  ..|. ..++..++||||++.|+...|..|++++++..           ..+++|++++..       ..+.+
T Consensus       217 ~~~~~~~~~~g~~~~a~~gtl~ldei~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~~~~~~~~~~~~~  296 (441)
T PRK10365        217 AFTGADKRREGRFVEADGGTLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQ  296 (441)
T ss_pred             CcCCCCcCCCCceeECCCCEEEEeccccCCHHHHHHHHHHHccCcEEeCCCCceeeeceEEEEeCCCCHHHHHHcCCchH
Confidence            000000  0000 01344589999999999999999999998643           134567666532       11223


Q ss_pred             cccCCce--EEEecCCCH--HHHHHHHHHHH----HHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCCCC
Q psy12150        183 PLTSRCS--KFRFKPLAE--NTMLTRLQYIC----EQES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGGEG  250 (456)
Q Consensus       183 ~l~~r~~--~i~f~~~~~--~el~~~l~~~~----~~~~---~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~~~~~  250 (456)
                      .|..+..  .+.++|+.+  +++..++...+    .+.+   ..+++++++.|..+. +||+|++.+.++.++..+.+..
T Consensus       297 ~l~~~l~~~~i~~ppLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgN~reL~~~~~~~~~~~~~~~  376 (441)
T PRK10365        297 DLYYRLNVVAIEVPSLRQRREDIPLLAGHFLQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLTGEY  376 (441)
T ss_pred             HHHHHhccceecCCChhhcchhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCCc
Confidence            3334433  455566653  34444444433    3333   358999999999876 9999999999999887777778


Q ss_pred             CCHHHHHHH
Q psy12150        251 IVNEDVLEV  259 (456)
Q Consensus       251 It~~~v~~~  259 (456)
                      |+.+++...
T Consensus       377 i~~~~l~~~  385 (441)
T PRK10365        377 ISERELPLA  385 (441)
T ss_pred             cchHhCchh
Confidence            998887543

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=98.99  E-value=9.5e-09  Score=101.18  Aligned_cols=152  Identities=19%  Similarity=0.132  Sum_probs=99.7

Q ss_pred             ccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHH--
Q psy12150         45 DDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQ--  122 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~--  122 (456)
                      ..++|++..+..+..++..++  |++|-||||+|||++++.+++.++.     +++.+++.......++.....-...  
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~~--~vll~G~PG~gKT~la~~lA~~l~~-----~~~~i~~t~~l~p~d~~G~~~~~~~~~   96 (329)
T COG0714          24 KVVVGDEEVIELALLALLAGG--HVLLEGPPGVGKTLLARALARALGL-----PFVRIQCTPDLLPSDLLGTYAYAALLL   96 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcCC--CEEEECCCCccHHHHHHHHHHHhCC-----CeEEEecCCCCCHHHhcCchhHhhhhc
Confidence            347888888888777776654  6999999999999999999999863     6777777765554443322111111  


Q ss_pred             -hhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc------------cCcceEEEEec-----Ccccccccc
Q psy12150        123 -QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE------------TKSTRFCLICN-----YVSCIIQPL  184 (456)
Q Consensus       123 -~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~------------~~~~~lIl~~~-----~~~kl~~~l  184 (456)
                       ...+...+.....+.+.++++||++...+..++.|+..|++.            +....++.+.|     ..+.+.+++
T Consensus        97 ~~~~~~~~~gpl~~~~~~ill~DEInra~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~Np~e~~g~~~l~eA~  176 (329)
T COG0714          97 EPGEFRFVPGPLFAAVRVILLLDEINRAPPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPLPEAL  176 (329)
T ss_pred             cCCeEEEecCCcccccceEEEEeccccCCHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccCccccCCCcCCCHHH
Confidence             111111111111112249999999999999999999999862            12233444446     235578899


Q ss_pred             cCCc-eEEEecCCCHHHHHH
Q psy12150        185 TSRC-SKFRFKPLAENTMLT  203 (456)
Q Consensus       185 ~~r~-~~i~f~~~~~~el~~  203 (456)
                      .+|| ..+.+..|...+...
T Consensus       177 ldRf~~~~~v~yp~~~~e~~  196 (329)
T COG0714         177 LDRFLLRIYVDYPDSEEEER  196 (329)
T ss_pred             HhhEEEEEecCCCCchHHHH
Confidence            9999 678888884444333

>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=98.99  E-value=4.5e-09  Score=92.75  Aligned_cols=124  Identities=17%  Similarity=0.175  Sum_probs=76.0

Q ss_pred             ccccHHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhh
Q psy12150         47 VIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQT  124 (456)
Q Consensus        47 ivg~~~~~~~l~~~l~~--~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~  124 (456)
                      ++|.+..+..+.+.++.  ....+++|+|++||||+.+|+++++....  ...+++.+||+... .+.+...+   ....
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s~r--~~~pfi~vnc~~~~-~~~~e~~L---FG~~   74 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNSPR--KNGPFISVNCAALP-EELLESEL---FGHE   74 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCSTT--TTS-EEEEETTTS--HHHHHHHH---HEBC
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhhhc--ccCCeEEEehhhhh-cchhhhhh---hccc
Confidence            46777777777666653  22345999999999999999999995432  23479999998742 22222221   1111


Q ss_pred             ccCCCC--CCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecC
Q psy12150        125 ASGFNQ--DGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNY  176 (456)
Q Consensus       125 ~~~~~~--~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~  176 (456)
                      ......  ....+    ++..+++|||++.|+...|..|+++|++..           .++++|++++.
T Consensus        75 ~~~~~~~~~~~~G~l~~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~  143 (168)
T PF00158_consen   75 KGAFTGARSDKKGLLEQANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSK  143 (168)
T ss_dssp             SSSSTTTSSEBEHHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS
T ss_pred             cccccccccccCCceeeccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecCc
Confidence            000000  00000    355699999999999999999999998532           35677777764

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 ....

>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=98.97  E-value=3.2e-10  Score=97.11  Aligned_cols=116  Identities=21%  Similarity=0.183  Sum_probs=71.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD  147 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d  147 (456)
                      +++|+||||||||++++.+++.+..     ++..++++.....+++..........................++++||++
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~-----~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin   75 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGR-----PVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEIN   75 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTC-----EEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCG
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhc-----ceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcc
Confidence            4899999999999999999999833     56667777655555443221111000000000000001245699999999


Q ss_pred             CccHHHHHHHHHHHHhcc-------------C------cceEEEEecCcc----cccccccCCc
Q psy12150        148 SMTHAAQAALRRTMEKET-------------K------STRFCLICNYVS----CIIQPLTSRC  188 (456)
Q Consensus       148 ~l~~~~~~~Ll~~le~~~-------------~------~~~lIl~~~~~~----kl~~~l~~r~  188 (456)
                      ...++.++.|+..+++..             .      +.++|.++|...    .+.+++++||
T Consensus        76 ~a~~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~l~~al~~Rf  139 (139)
T PF07728_consen   76 RAPPEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKELSPALLDRF  139 (139)
T ss_dssp             G--HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTTTCHHHHTT-
T ss_pred             cCCHHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCcCCHHHHhhC
Confidence            999999999999886421             1      267888888765    6777888875

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.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=98.95  E-value=7.9e-09  Score=109.06  Aligned_cols=201  Identities=18%  Similarity=0.175  Sum_probs=140.0

Q ss_pred             chhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccc-----cceEEeeCCCC--
Q psy12150         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYR-----ERILELNASDD--  107 (456)
Q Consensus        35 w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~-----~~~~e~n~~~~--  107 (456)
                      ..+.-|-..++-++|+++.++++.+.+.+....|-+|.|+||+|||.++.-++..+..+..+     ..++.++....  
T Consensus       160 lt~~Ar~gklDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvA  239 (786)
T COG0542         160 LTELAREGKLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVA  239 (786)
T ss_pred             hHHHHhcCCCCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhc
Confidence            34444556788899999999999999988777778999999999999999999998764432     23444444431  


Q ss_pred             --cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH---------HHHHHHHHHHHhccCcceEEEEec-
Q psy12150        108 --RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH---------AAQAALRRTMEKETKSTRFCLICN-  175 (456)
Q Consensus       108 --~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~---------~~~~~Ll~~le~~~~~~~lIl~~~-  175 (456)
                        .-.+++.+.++.........         +.-|+||||+|.+.+         ++.+.|...|....  ..+|.+|+ 
T Consensus       240 GakyRGeFEeRlk~vl~ev~~~---------~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGe--L~~IGATT~  308 (786)
T COG0542         240 GAKYRGEFEERLKAVLKEVEKS---------KNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGE--LRCIGATTL  308 (786)
T ss_pred             cccccCcHHHHHHHHHHHHhcC---------CCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCC--eEEEEeccH
Confidence              11123334443333222111         233999999998843         23455666776544  44555554 


Q ss_pred             -Ccc---cccccccCCceEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCCC------HHHHHHHHHH
Q psy12150        176 -YVS---CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGGD------MRRAITCLQS  241 (456)
Q Consensus       176 -~~~---kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~----~~~~i~~~~l~~L~~~s~gd------lr~~~~~L~~  241 (456)
                       .+.   .-.++|.+|++.|....|+.++...+|+....+    .++.++++++...+..+...      +..++..++.
T Consensus       309 ~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D~Al~aAv~LS~RYI~dR~LPDKAIDLiDe  388 (786)
T COG0542         309 DEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRFLPDKAIDLLDE  388 (786)
T ss_pred             HHHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHHHHHHHccCceecHHHHHHHHHHHHhhcccCCCCchHHHHHHH
Confidence             222   346789999999999999999999999877654    57899999999988877533      4568888887


Q ss_pred             HHHhh
Q psy12150        242 CARLK  246 (456)
Q Consensus       242 ~~~~~  246 (456)
                      +++..
T Consensus       389 A~a~~  393 (786)
T COG0542         389 AGARV  393 (786)
T ss_pred             HHHHH
Confidence            76654

>smart00350 MCM minichromosome maintenance proteins

Probab=98.95  E-value=5.3e-08  Score=101.24  Aligned_cols=207  Identities=16%  Similarity=0.153  Sum_probs=116.5

Q ss_pred             cccccHHHHHHHHHHHhcCCC------------CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh--H
Q psy12150         46 DVIEQQEVVSVLKKCLSGADL------------PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI--Q  111 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~~~------------~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~--~  111 (456)
                      .+.|++.++..+.-.+-+|..            .|+||+|+||+|||++++.+++.....    .+......+..+.  .
T Consensus       204 ~i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~----~~~~~~~~~~~~l~~~  279 (509)
T smart00350      204 SIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRA----VYTTGKGSSAVGLTAA  279 (509)
T ss_pred             cccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcc----eEcCCCCCCcCCcccc
Confidence            456777766665555544421            169999999999999999999865321    1111100110000  0


Q ss_pred             HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-------------CcceEEEEecCcc
Q psy12150        112 VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTRFCLICNYVS  178 (456)
Q Consensus       112 ~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-------------~~~~lIl~~~~~~  178 (456)
                      .+++.   . ... ..........++..+++|||++.+....+..|++.|++..             ..+.+|.++|...
T Consensus       280 ~~~~~---~-~g~-~~~~~G~l~~A~~Gil~iDEi~~l~~~~q~~L~e~me~~~i~i~k~G~~~~l~~~~~viAa~NP~~  354 (509)
T smart00350      280 VTRDP---E-TRE-FTLEGGALVLADNGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIG  354 (509)
T ss_pred             ceEcc---C-cce-EEecCccEEecCCCEEEEechhhCCHHHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCC
Confidence            00000   0 000 0000000001345599999999999999999999997632             3456777777431


Q ss_pred             -------------cccccccCCce-E-EEecCCCHHHHHHHHHHHH------------------------------HH-c
Q psy12150        179 -------------CIIQPLTSRCS-K-FRFKPLAENTMLTRLQYIC------------------------------EQ-E  212 (456)
Q Consensus       179 -------------kl~~~l~~r~~-~-i~f~~~~~~el~~~l~~~~------------------------------~~-~  212 (456)
                                   .+.+++.+|+. . +-...++.+.-..++..++                              +. -
T Consensus       355 g~y~~~~~~~~n~~l~~~lLsRFdLi~~~~d~~~~~~d~~i~~~i~~~~~~~~~~~~~~~~~~~~~~~l~~yi~~ar~~~  434 (509)
T smart00350      355 GRYDPKLTPEENIDLPAPILSRFDLLFVVLDEVDEERDRELAKHVVDLHRYSHPEPDEADEVPISQEFLRKYIAYAREKI  434 (509)
T ss_pred             cccCCCcChhhccCCChHHhCceeeEEEecCCCChHHHHHHHHHHHHhhcccCccccccccccCCHHHHHHHHHHHHhcC
Confidence                         46778889984 2 3334455444333333322                              11 1


Q ss_pred             CCCCCHHHHHHHHHHc-----C-----------CCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        213 SVMCDFKALETLVETS-----G-----------GDMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       213 ~~~i~~~~l~~L~~~s-----~-----------gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      ...+++++.+.|....     .           -.+|.+...++-+.+.|   ....|+.+||..++.
T Consensus       435 ~P~ls~~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~~~Dv~~ai~  502 (509)
T smart00350      435 KPKLSEEAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSDVVEEADVEEAIR  502 (509)
T ss_pred             CCCCCHHHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            1256788777765421     1           14566666665444433   577888888887764

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=98.94  E-value=3.7e-08  Score=103.82  Aligned_cols=192  Identities=16%  Similarity=0.132  Sum_probs=114.7

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC--CCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEE
Q psy12150         65 DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS--DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVI  142 (456)
Q Consensus        65 ~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~--~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~ivi  142 (456)
                      ...++||.|++|+|||++++++++.+...   ..++.++..  ...-...+  .+............+.--..++..+++
T Consensus        15 ~~g~vLl~G~~GtgKs~lar~l~~~~~~~---~pfv~i~~~~t~d~L~G~i--dl~~~~~~g~~~~~~G~L~~A~~GvL~   89 (589)
T TIGR02031        15 SLGGVAIRARAGTGKTALARALAEILPPI---MPFVELPLGVTEDRLIGGI--DVEESLAGGQRVTQPGLLDEAPRGVLY   89 (589)
T ss_pred             CcceEEEEcCCCcHHHHHHHHHHHhCCcC---CCeEecCcccchhhcccch--hhhhhhhcCcccCCCCCeeeCCCCcEe
Confidence            35679999999999999999999976432   134544431  11111111  000000000000000000013455999


Q ss_pred             EcCCCCccHHHHHHHHHHHHhcc-------------CcceEEEEecCcc---cccccccCCce-EEEecCC-CHHHHHHH
Q psy12150        143 LDEADSMTHAAQAALRRTMEKET-------------KSTRFCLICNYVS---CIIQPLTSRCS-KFRFKPL-AENTMLTR  204 (456)
Q Consensus       143 IDE~d~l~~~~~~~Ll~~le~~~-------------~~~~lIl~~~~~~---kl~~~l~~r~~-~i~f~~~-~~~el~~~  204 (456)
                      +||++.+.+..+..|++.|++..             ..+.+|.+.|...   .+.+++..|+. .+.+..+ +.++..++
T Consensus        90 lDEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~LldRf~l~v~~~~~~~~~er~ei  169 (589)
T TIGR02031        90 VDMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLDRLALHVSLEDVASQDLRVEI  169 (589)
T ss_pred             ccchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHHhccCeeecCCCCCHHHHHHH
Confidence            99999999999999999998643             2345665555433   56677888876 3444333 44443444


Q ss_pred             HHHHH---------------------H--HcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHHHh---hCCCCCCHH
Q psy12150        205 LQYIC---------------------E--QESVMCDFKALETLVETS---GG-DMRRAITCLQSCARL---KGGEGIVNE  254 (456)
Q Consensus       205 l~~~~---------------------~--~~~~~i~~~~l~~L~~~s---~g-dlr~~~~~L~~~~~~---~~~~~It~~  254 (456)
                      +....                     +  ...+.++++.++.|+..+   +- .+|..+..+.-+...   .+...|+.+
T Consensus       170 l~~~~~~~~~~~~~~~~~~~~~i~~ar~~~~~V~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~~  249 (589)
T TIGR02031       170 VRRERCNEVFRMNDELELLRGQIEAARELLPQVTISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVTEE  249 (589)
T ss_pred             HHHHHHhhhhhcchhhHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCCHH
Confidence            43321                     1  135678999888887754   32 367777766554433   378899999


Q ss_pred             HHHHHhC
Q psy12150        255 DVLEVTG  261 (456)
Q Consensus       255 ~v~~~~~  261 (456)
                      ||..++.
T Consensus       250 Dv~~a~~  256 (589)
T TIGR02031       250 DLKLAVE  256 (589)
T ss_pred             HHHHHHH
Confidence            9998865

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.

>TIGR00368 Mg chelatase-related protein

Probab=98.92  E-value=3.8e-08  Score=101.18  Aligned_cols=217  Identities=21%  Similarity=0.218  Sum_probs=123.5

Q ss_pred             CCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc-ChHHHHHHHH--
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR-GIQVIRDKVK--  118 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~-~~~~i~~~l~--  118 (456)
                      ..|+++.|++..++.+.-.+.++  .+++|.||||+|||++++.+...+.... ....++....... +.......+.  
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa~~g--~~vlliG~pGsGKTtlar~l~~llp~~~-~~~~le~~~i~s~~g~~~~~~~~~~~  265 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAAAGG--HNLLLFGPPGSGKTMLASRLQGILPPLT-NEEAIETARIWSLVGKLIDRKQIKQR  265 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhccCC--CEEEEEecCCCCHHHHHHHHhcccCCCC-CcEEEeccccccchhhhccccccccC
Confidence            37999999999998888887655  3699999999999999999987543211 1112221111000 0000000000  


Q ss_pred             HHH-------HhhccCCCCCCCC----CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-------------CcceEEEEe
Q psy12150        119 TFA-------QQTASGFNQDGKP----CPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTRFCLIC  174 (456)
Q Consensus       119 ~~~-------~~~~~~~~~~~~~----~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-------------~~~~lIl~~  174 (456)
                      -|.       .....+.....+|    .++..++||||++.+....++.|++.|++..             ..+.+|.++
T Consensus       266 Pf~~p~~s~s~~~~~ggg~~~~pG~i~lA~~GvLfLDEi~e~~~~~~~~L~~~LE~~~v~i~r~g~~~~~pa~frlIaa~  345 (499)
T TIGR00368       266 PFRSPHHSASKPALVGGGPIPLPGEISLAHNGVLFLDELPEFKRSVLDALREPIEDGSISISRASAKIFYPARFQLVAAM  345 (499)
T ss_pred             CccccccccchhhhhCCccccchhhhhccCCCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEec
Confidence            000       0000000000011    1455699999999999999999999998642             356677777


Q ss_pred             cCc-----------------------ccccccccCCce-EEEecCCCHHH------------HHHHHHHH-HHH----cC
Q psy12150        175 NYV-----------------------SCIIQPLTSRCS-KFRFKPLAENT------------MLTRLQYI-CEQ----ES  213 (456)
Q Consensus       175 ~~~-----------------------~kl~~~l~~r~~-~i~f~~~~~~e------------l~~~l~~~-~~~----~~  213 (456)
                      |.-                       .++..+|.+|+. .+.+++++.++            +++.+... ..+    .+
T Consensus       346 Npcpcg~~~~~~~~c~c~~~~~~~y~~~is~pllDR~dl~~~~~~~~~~~l~~~~~~e~s~~ir~rV~~Ar~~q~~R~~~  425 (499)
T TIGR00368       346 NPCPCGHYGGKNTHCRCSPQQISRYWNKLSGPFLDRIDLSVEVPLLPPEKLLSTGSGESSAEVKQRVIKAREIQNIRYEK  425 (499)
T ss_pred             CCcccCcCCCCcccccCCHHHHHHHhhhccHhHHhhCCEEEEEcCCCHHHHhccCCCCCHHHHHHHHHHHHHHHHHHhcC
Confidence            631                       146677888887 56777665443            33333211 111    01


Q ss_pred             ------------------CCCCHHHHHHHHHH---cCCCHHHHHHHHHHHHH---hhCCCCCCHHHHHHHhC
Q psy12150        214 ------------------VMCDFKALETLVET---SGGDMRRAITCLQSCAR---LKGGEGIVNEDVLEVTG  261 (456)
Q Consensus       214 ------------------~~i~~~~l~~L~~~---s~gdlr~~~~~L~~~~~---~~~~~~It~~~v~~~~~  261 (456)
                                        ..+++++.+.+...   .+=..|.....|.-+..   ..+...|+.++|.+++.
T Consensus       426 ~~~~~~N~~l~~~~l~~~~~l~~~~~~~l~~a~~~~~lS~R~~~rilrvArTiAdL~g~~~i~~~hv~eA~~  497 (499)
T TIGR00368       426 FANINKNADLNSDEIEQFCKLSAIDANDLEGALNKLGLSSRATHRILKVARTIADLKEEKNISREHLAEAIE  497 (499)
T ss_pred             CCCCcccccCCHHHHHhhcCCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHh
Confidence                              12355554444332   23355655555544433   34678899999988764

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=98.90  E-value=9.3e-08  Score=87.38  Aligned_cols=201  Identities=18%  Similarity=0.195  Sum_probs=126.4

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHH-------
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQ-------  122 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~-------  122 (456)
                      +.+.+..+...+..++ .-+.++|+-|+|||.+.+++...+..+..  ..+.++.........+...+-++..       
T Consensus        36 h~e~l~~l~~~i~d~q-g~~~vtGevGsGKTv~~Ral~~s~~~d~~--~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~  112 (269)
T COG3267          36 HNEALLMLHAAIADGQ-GILAVTGEVGSGKTVLRRALLASLNEDQV--AVVVIDKPTLSDATLLEAIVADLESQPKVNVN  112 (269)
T ss_pred             hhHHHHHHHHHHhcCC-ceEEEEecCCCchhHHHHHHHHhcCCCce--EEEEecCcchhHHHHHHHHHHHhccCccchhH
Confidence            4566677777777654 13899999999999999977777665432  2234444332221111111111111       


Q ss_pred             --------hhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHH---hccCcceEEEEecCc--c----ccccccc
Q psy12150        123 --------QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTME---KETKSTRFCLICNYV--S----CIIQPLT  185 (456)
Q Consensus       123 --------~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le---~~~~~~~lIl~~~~~--~----kl~~~l~  185 (456)
                              ..........    ...++++||++.+..+..+.|+.+.+   +..+...+++++.+.  .    -....+.
T Consensus       113 ~~~e~~~~~L~al~~~g~----r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~  188 (269)
T COG3267         113 AVLEQIDRELAALVKKGK----RPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELE  188 (269)
T ss_pred             HHHHHHHHHHHHHHHhCC----CCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhh
Confidence                    0000000111    11499999999999999888876654   333334455555321  1    1234466


Q ss_pred             CCceE-EEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---CCCCCCHHHHH
Q psy12150        186 SRCSK-FRFKPLAENTMLTRLQYICEQESVM---CDFKALETLVETSGGDMRRAITCLQSCARLK---GGEGIVNEDVL  257 (456)
Q Consensus       186 ~r~~~-i~f~~~~~~el~~~l~~~~~~~~~~---i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~---~~~~It~~~v~  257 (456)
                      .|+.. ++.+|++.++...+|+.+++..+..   ++++++..+...+.|-+|.+-+.+.++...+   ++..|+...++
T Consensus       189 ~R~~ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~Al~~a~~a~~~~v~~a~~~  267 (269)
T COG3267         189 QRIDIRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATLALDAAYSAGEDGVSEAEIK  267 (269)
T ss_pred             heEEEEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHHHHHHHHHcCCCccchhhcc
Confidence            77775 9999999999999999999876543   6899999999999997777666665543322   56677766553

>PHA02244 ATPase-like protein

Probab=98.90  E-value=2.6e-08  Score=96.90  Aligned_cols=129  Identities=15%  Similarity=0.116  Sum_probs=83.2

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHH---HHHHhhccCCCCC
Q psy12150         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVK---TFAQQTASGFNQD  131 (456)
Q Consensus        55 ~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~---~~~~~~~~~~~~~  131 (456)
                      ..+.+++..+.  +++|+||+|||||+++++++..+..     +++.++....  ...+...+.   .+...+...    
T Consensus       110 ~ri~r~l~~~~--PVLL~GppGtGKTtLA~aLA~~lg~-----pfv~In~l~d--~~~L~G~i~~~g~~~dgpLl~----  176 (383)
T PHA02244        110 ADIAKIVNANI--PVFLKGGAGSGKNHIAEQIAEALDL-----DFYFMNAIMD--EFELKGFIDANGKFHETPFYE----  176 (383)
T ss_pred             HHHHHHHhcCC--CEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEecChH--HHhhcccccccccccchHHHH----
Confidence            45566666543  5999999999999999999998754     3444542210  000000000   000000000    


Q ss_pred             CCCCCCcEEEEEcCCCCccHHHHHHHHHHHHh-----------ccCcceEEEEecCc-----------ccccccccCCce
Q psy12150        132 GKPCPPFKIVILDEADSMTHAAQAALRRTMEK-----------ETKSTRFCLICNYV-----------SCIIQPLTSRCS  189 (456)
Q Consensus       132 ~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~-----------~~~~~~lIl~~~~~-----------~kl~~~l~~r~~  189 (456)
                        ......+++|||++.+.++.+..|...+++           ..++..+|+++|..           +.+.+++.+|+.
T Consensus       177 --A~~~GgvLiLDEId~a~p~vq~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~AllDRFv  254 (383)
T PHA02244        177 --AFKKGGLFFIDEIDASIPEALIIINSAIANKFFDFADERVTAHEDFRVISAGNTLGKGADHIYVARNKIDGATLDRFA  254 (383)
T ss_pred             --HhhcCCEEEEeCcCcCCHHHHHHHHHHhccCeEEecCcEEecCCCEEEEEeeCCCccCcccccCCCcccCHHHHhhcE
Confidence              001334999999999999999999888863           23567888888852           456788999999


Q ss_pred             EEEecCCCH
Q psy12150        190 KFRFKPLAE  198 (456)
Q Consensus       190 ~i~f~~~~~  198 (456)
                      .++|..+++
T Consensus       255 ~I~~dyp~~  263 (383)
T PHA02244        255 PIEFDYDEK  263 (383)
T ss_pred             EeeCCCCcH
Confidence            999988874

>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=98.89  E-value=7.3e-09  Score=92.97  Aligned_cols=117  Identities=23%  Similarity=0.276  Sum_probs=67.1

Q ss_pred             CcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC----------------
Q psy12150         43 TIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD----------------  106 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~----------------  106 (456)
                      .|++|+||+..++.+.-+..++  .|++++||||+|||++++++..-+-. .......++....                
T Consensus         1 Df~dI~GQe~aKrAL~iAAaG~--h~lLl~GppGtGKTmlA~~l~~lLP~-l~~~e~le~~~i~s~~~~~~~~~~~~~~P   77 (206)
T PF01078_consen    1 DFSDIVGQEEAKRALEIAAAGG--HHLLLIGPPGTGKTMLARRLPSLLPP-LTEEEALEVSKIYSVAGLGPDEGLIRQRP   77 (206)
T ss_dssp             -TCCSSSTHHHHHHHHHHHHCC----EEEES-CCCTHHHHHHHHHHCS---CCEECCESS--S-TT---S---EEEE---
T ss_pred             ChhhhcCcHHHHHHHHHHHcCC--CCeEEECCCCCCHHHHHHHHHHhCCC-CchHHHhhhccccccccCCCCCceecCCC
Confidence            3789999999999999988875  47999999999999999999975421 1111111111100                


Q ss_pred             CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc
Q psy12150        107 DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (456)
Q Consensus       107 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~  164 (456)
                      .+....- .....+..... ...+..-..+++.|+|+||+..+.+...+.|++.+++.
T Consensus        78 fr~phhs-~s~~~liGgg~-~~~PGeislAh~GVLflDE~~ef~~~vld~Lr~ple~g  133 (206)
T PF01078_consen   78 FRAPHHS-ASEAALIGGGR-PPRPGEISLAHRGVLFLDELNEFDRSVLDALRQPLEDG  133 (206)
T ss_dssp             EEEE-TT---HHHHHEEGG-GEEE-CGGGGTTSEEEECETTTS-HHHHHHHHHHHHHS
T ss_pred             cccCCCC-cCHHHHhCCCc-CCCcCHHHHhcCCEEEechhhhcCHHHHHHHHHHHHCC
Confidence            0000000 00011111100 00000000146679999999999999999999999864

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.

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=98.86  E-value=2.8e-08  Score=101.41  Aligned_cols=186  Identities=20%  Similarity=0.203  Sum_probs=123.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCC----CCcEEEEE
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPC----PPFKIVIL  143 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~----~~~~iviI  143 (456)
                      ++++.|++|+||..+++++++...   ...+++-+||.-. ....+...+..+...++.+....+..+    ++...+|+
T Consensus       338 pvll~GEtGtGKe~laraiH~~s~---~~gpfvAvNCaAi-p~~liesELFGy~~GafTga~~kG~~g~~~~A~gGtlFl  413 (606)
T COG3284         338 PVLLQGETGTGKEVLARAIHQNSE---AAGPFVAVNCAAI-PEALIESELFGYVAGAFTGARRKGYKGKLEQADGGTLFL  413 (606)
T ss_pred             CeEecCCcchhHHHHHHHHHhccc---ccCCeEEEEeccc-hHHhhhHHHhccCccccccchhccccccceecCCCccHH
Confidence            399999999999999999999754   3447888998762 223344444443333333222222211    56679999


Q ss_pred             cCCCCccHHHHHHHHHHHHhcc----------CcceEEEEecCc-------ccccccccCCce--EEEecCCCHH-HHHH
Q psy12150        144 DEADSMTHAAQAALRRTMEKET----------KSTRFCLICNYV-------SCIIQPLTSRCS--KFRFKPLAEN-TMLT  203 (456)
Q Consensus       144 DE~d~l~~~~~~~Ll~~le~~~----------~~~~lIl~~~~~-------~kl~~~l~~r~~--~i~f~~~~~~-el~~  203 (456)
                      ||+..|+-+.|..|++.|++..          ..+.+|.+++..       .++-+.|.-|..  +++++|+.+. +...
T Consensus       414 deIgd~p~~~Qs~LLrVl~e~~v~p~g~~~~~vdirvi~ath~dl~~lv~~g~fredLyyrL~~~~i~lP~lr~R~d~~~  493 (606)
T COG3284         414 DEIGDMPLALQSRLLRVLQEGVVTPLGGTRIKVDIRVIAATHRDLAQLVEQGRFREDLYYRLNAFVITLPPLRERSDRIP  493 (606)
T ss_pred             HHhhhchHHHHHHHHHHHhhCceeccCCcceeEEEEEEeccCcCHHHHHHcCCchHHHHHHhcCeeeccCchhcccccHH
Confidence            9999999999999999998642          234466555432       122233333333  6777777542 2223


Q ss_pred             HHHHHHHH---cCCCCCHHHHHHHHH-HcCCCHHHHHHHHHHHHHhhCCCCCCHHHHH
Q psy12150        204 RLQYICEQ---ESVMCDFKALETLVE-TSGGDMRRAITCLQSCARLKGGEGIVNEDVL  257 (456)
Q Consensus       204 ~l~~~~~~---~~~~i~~~~l~~L~~-~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~  257 (456)
                      .|.++.++   .+..++++++..|.. ..+||+|++.|.++.++..++++.|...|..
T Consensus       494 ~l~~~~~~~~~~~~~l~~~~~~~l~~~~WPGNirel~~v~~~~~~l~~~g~~~~~dlp  551 (606)
T COG3284         494 LLDRILKRENDWRLQLDDDALARLLAYRWPGNIRELDNVIERLAALSDGGRIRVSDLP  551 (606)
T ss_pred             HHHHHHHHccCCCccCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCCCeeEcccCC
Confidence            33444443   457899999988665 5799999999999999998877777655543

>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=98.85  E-value=1.3e-08  Score=90.11  Aligned_cols=102  Identities=25%  Similarity=0.362  Sum_probs=69.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc-CCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF-GDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA  146 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~-~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~  146 (456)
                      +++|.||+|+|||.+++++++.+. +...  +++.+|++.....+.....+..+...+.....     ..+..||++||+
T Consensus         5 ~~ll~GpsGvGKT~la~~la~~l~~~~~~--~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~-----~~~~gVVllDEi   77 (171)
T PF07724_consen    5 NFLLAGPSGVGKTELAKALAELLFVGSER--PLIRIDMSEYSEGDDVESSVSKLLGSPPGYVG-----AEEGGVVLLDEI   77 (171)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHT-SSCC--EEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHH-----HHHHTEEEEETG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhccCCcc--chHHHhhhcccccchHHhhhhhhhhcccceee-----ccchhhhhhHHH
Confidence            499999999999999999999997 4433  67888888766533222222222221110000     012239999999


Q ss_pred             CCccH-----------HHHHHHHHHHHhc-----------cCcceEEEEecC
Q psy12150        147 DSMTH-----------AAQAALRRTMEKE-----------TKSTRFCLICNY  176 (456)
Q Consensus       147 d~l~~-----------~~~~~Ll~~le~~-----------~~~~~lIl~~~~  176 (456)
                      |...+           ..++.|++.+++.           ..+++||+++|-
T Consensus        78 dKa~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~  129 (171)
T PF07724_consen   78 DKAHPSNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNF  129 (171)
T ss_dssp             GGCSHTTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESS
T ss_pred             hhccccccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEeccc
Confidence            99999           9999999999863           245778888773

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 ....

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

Probab=98.85  E-value=3.3e-08  Score=98.75  Aligned_cols=154  Identities=19%  Similarity=0.263  Sum_probs=93.5

Q ss_pred             cccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCc--cccceEEeeCCCC----------c--C
Q psy12150         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM--YRERILELNASDD----------R--G  109 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~--~~~~~~e~n~~~~----------~--~  109 (456)
                      ++++++.+..++.+...+..+  .+++|+||||||||++|+.+++.+....  .+...+.+..+..          .  +
T Consensus       174 l~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~~vg  251 (459)
T PRK11331        174 LNDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPNGVG  251 (459)
T ss_pred             hhcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCCCCC
Confidence            567788888888888888754  3699999999999999999999886532  1222333322110          0  0


Q ss_pred             hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH-HHHHHHHHHh----------------------ccC
Q psy12150        110 IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA-QAALRRTMEK----------------------ETK  166 (456)
Q Consensus       110 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~-~~~Ll~~le~----------------------~~~  166 (456)
                      .......+..+...+...      + ....++||||+++...+. ...++..|+.                      .+.
T Consensus       252 y~~~~G~f~~~~~~A~~~------p-~~~~vliIDEINRani~kiFGel~~lLE~~~rg~~~~v~l~y~e~d~e~f~iP~  324 (459)
T PRK11331        252 FRRKDGIFYNFCQQAKEQ------P-EKKYVFIIDEINRANLSKVFGEVMMLMEHDKRGENWSVPLTYSENDEERFYVPE  324 (459)
T ss_pred             eEecCchHHHHHHHHHhc------c-cCCcEEEEehhhccCHHHhhhhhhhhccccccccccceeeeccccccccccCCC
Confidence            000000111111111100      0 123499999999987553 4555555542                      134


Q ss_pred             cceEEEEecCcc----cccccccCCceEEEecC-CCHHHHHHHHH
Q psy12150        167 STRFCLICNYVS----CIIQPLTSRCSKFRFKP-LAENTMLTRLQ  206 (456)
Q Consensus       167 ~~~lIl~~~~~~----kl~~~l~~r~~~i~f~~-~~~~el~~~l~  206 (456)
                      ++.+|.+.|...    .+..++++|+..+++.| ++...+.+++.
T Consensus       325 Nl~IIgTMNt~Drs~~~lD~AlrRRF~fi~i~p~~~~~~~~~~l~  369 (459)
T PRK11331        325 NVYIIGLMNTADRSLAVVDYALRRRFSFIDIEPGFDTPQFRNFLL  369 (459)
T ss_pred             CeEEEEecCccccchhhccHHHHhhhheEEecCCCChHHHHHHHH
Confidence            566777777543    46788999999988887 45555666654

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.83  E-value=7.5e-09  Score=88.54  Aligned_cols=106  Identities=15%  Similarity=0.197  Sum_probs=69.7

Q ss_pred             cccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhc
Q psy12150         48 IEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTA  125 (456)
Q Consensus        48 vg~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~  125 (456)
                      +|....++.+++.++.-  ...+++|+|++||||+++|+.++..-..  ....++.+++....     .+.+..    ..
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~--~~~~~~~~~~~~~~-----~~~l~~----a~   69 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGR--ANGPFIVIDCASLP-----AELLEQ----AK   69 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTT--CCS-CCCCCHHCTC-----HHHHHH----CT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCc--cCCCeEEechhhCc-----HHHHHH----cC
Confidence            46666666666666532  2235999999999999999999986433  22244444554422     111111    11


Q ss_pred             cCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc-cCcceEEEEecC
Q psy12150        126 SGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-TKSTRFCLICNY  176 (456)
Q Consensus       126 ~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~-~~~~~lIl~~~~  176 (456)
                      .            ..++|+|++.|+.+.|..|.+++++. ..++++|+++..
T Consensus        70 ~------------gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~  109 (138)
T PF14532_consen   70 G------------GTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQ  109 (138)
T ss_dssp             T------------SEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC
T ss_pred             C------------CEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCC
Confidence            1            28999999999999999999999864 566788888764

>PF13173 AAA_14: AAA domain

Probab=98.78  E-value=8e-08  Score=81.03  Aligned_cols=120  Identities=21%  Similarity=0.316  Sum_probs=76.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD  147 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d  147 (456)
                      .++|+||.|+|||++++.+++.+.   ...+++++|..+..........+.........         .+..+|||||++
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~i~iDEiq   71 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPDLLEYFLELIK---------PGKKYIFIDEIQ   71 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhhhHHHHHHhhc---------cCCcEEEEehhh
Confidence            489999999999999999998875   12367777777633322111001111111110         033499999999


Q ss_pred             CccHHHHHHHHHHHHhccCcceEEEEecCc----ccccccccCCceEEEecCCCHHHH
Q psy12150        148 SMTHAAQAALRRTMEKETKSTRFCLICNYV----SCIIQPLTSRCSKFRFKPLAENTM  201 (456)
Q Consensus       148 ~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~----~kl~~~l~~r~~~i~f~~~~~~el  201 (456)
                      .+. +....+..+.++. .+..+++++...    .+....+..|...+++.|++-.|.
T Consensus        72 ~~~-~~~~~lk~l~d~~-~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   72 YLP-DWEDALKFLVDNG-PNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             hhc-cHHHHHHHHHHhc-cCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            986 3445555555554 455566666543    344567888988999999998774

>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=98.75  E-value=1.9e-07  Score=90.10  Aligned_cols=185  Identities=12%  Similarity=0.130  Sum_probs=100.6

Q ss_pred             cHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHH--hcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhc
Q psy12150         50 QQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQ--LFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTA  125 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~--l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~  125 (456)
                      ++..+++|.+.+....  ...+.|+|++|+|||++|..+++.  ....+ . .++-++.+.......+...+........
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f-~-~v~wv~~~~~~~~~~~~~~i~~~l~~~~   78 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRF-D-GVIWVSLSKNPSLEQLLEQILRQLGEPD   78 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCC-T-EEEEEEEES-SCCHHHHHHHHHHHTCC-
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccccccccc-c-cccccccccccccccccccccccccccc
Confidence            4667888999988733  333999999999999999999977  33322 2 2333333332222332222222211110


Q ss_pred             cCC-CCCCC----------CCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEEec
Q psy12150        126 SGF-NQDGK----------PCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFK  194 (456)
Q Consensus       126 ~~~-~~~~~----------~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~  194 (456)
                      ... .....          -...+-++|+|+++...  ..+.+...+.....++.+|+|+... .+..........+++.
T Consensus        79 ~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~kilvTTR~~-~v~~~~~~~~~~~~l~  155 (287)
T PF00931_consen   79 SSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEE--DLEELREPLPSFSSGSKILVTTRDR-SVAGSLGGTDKVIELE  155 (287)
T ss_dssp             STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHH--HH-------HCHHSS-EEEEEESCG-GGGTTHHSCEEEEECS
T ss_pred             cccccccccccccccchhhhccccceeeeeeecccc--ccccccccccccccccccccccccc-cccccccccccccccc
Confidence            000 00000          00234599999987654  3444555454444566777776543 3333333336689999


Q ss_pred             CCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHHHHHH
Q psy12150        195 PLAENTMLTRLQYICEQES---VMCDFKALETLVETSGGDMRRAITCL  239 (456)
Q Consensus       195 ~~~~~el~~~l~~~~~~~~---~~i~~~~l~~L~~~s~gdlr~~~~~L  239 (456)
                      +++.++..+++...+....   ..-.++..+.|++.++|.+-.+....
T Consensus       156 ~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a  203 (287)
T PF00931_consen  156 PLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIA  203 (287)
T ss_dssp             S--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999999999998876544   12235567889999998776544443

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.

>KOG2170|consensus

Probab=98.74  E-value=2.4e-07  Score=86.30  Aligned_cols=123  Identities=19%  Similarity=0.279  Sum_probs=79.4

Q ss_pred             ccccHHHH----HHHHHHHhcCCCCe---EEEECCCCCcHHHHHHHHHHHhcCCccccceE-----EeeCCCCcChHHHH
Q psy12150         47 VIEQQEVV----SVLKKCLSGADLPH---FLFYGPPGTGKTSTMIAACHQLFGDMYRERIL-----ELNASDDRGIQVIR  114 (456)
Q Consensus        47 ivg~~~~~----~~l~~~l~~~~~~~---~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~-----e~n~~~~~~~~~i~  114 (456)
                      +.||.-++    +.++..+.+..+..   +-|||.+||||+..++.+++.+.....+.+++     ..+.......+..+
T Consensus        84 lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~~ie~Yk  163 (344)
T KOG2170|consen   84 LFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHASKIEDYK  163 (344)
T ss_pred             hhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChHHHHHHH
Confidence            45654444    44455555554332   78999999999999999999987654443333     22333333444444


Q ss_pred             HHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-------CcceEEEEecCc
Q psy12150        115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------KSTRFCLICNYV  177 (456)
Q Consensus       115 ~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-------~~~~lIl~~~~~  177 (456)
                      ..+..........       | .+.+.|+||+|.|.+...+.|...++-++       ...+|||.+|..
T Consensus       164 ~eL~~~v~~~v~~-------C-~rslFIFDE~DKmp~gLld~lkpfLdyyp~v~gv~frkaIFIfLSN~g  225 (344)
T KOG2170|consen  164 EELKNRVRGTVQA-------C-QRSLFIFDEVDKLPPGLLDVLKPFLDYYPQVSGVDFRKAIFIFLSNAG  225 (344)
T ss_pred             HHHHHHHHHHHHh-------c-CCceEEechhhhcCHhHHHHHhhhhccccccccccccceEEEEEcCCc
Confidence            4444433332221       1 55599999999999999988888887433       357889988753

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.69  E-value=7.1e-07  Score=87.02  Aligned_cols=91  Identities=10%  Similarity=-0.079  Sum_probs=64.1

Q ss_pred             CCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------ccccccccCCceEEEecCCC
Q psy12150        136 PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCIIQPLTSRCSKFRFKPLA  197 (456)
Q Consensus       136 ~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~kl~~~l~~r~~~i~f~~~~  197 (456)
                      +++.++-++|+.....+.+..|+..+++..           ...+||.++|..       .+..++|++||..+.++.+.
T Consensus       235 aNrGi~~f~Ei~K~~~~~l~~LL~~~qE~~v~~~~~~~~~~~d~liia~sNe~e~~~~~~~k~~eaf~dR~~~i~vpY~l  314 (361)
T smart00763      235 ANRGILEFVEMFKADIKFLHPLLTATQEGNIKGTGGFAMIPIDGLIIAHSNESEWQRFKSNKKNEALLDRIIKVKVPYCL  314 (361)
T ss_pred             ccCceEEEeehhcCCHHHHHHHhhhhhcceEecCCcccccccceEEEEeCCHHHHhhhhccccchhhhhceEEEeCCCcC
Confidence            567899999999999999999999887532           123456666643       36689999999988886554


Q ss_pred             -HHHHHHHHHHHHHHc---CCCCCHHHHHHHHH
Q psy12150        198 -ENTMLTRLQYICEQE---SVMCDFKALETLVE  226 (456)
Q Consensus       198 -~~el~~~l~~~~~~~---~~~i~~~~l~~L~~  226 (456)
                       .++-.++.++.+...   +..+.+.+++.++.
T Consensus       315 ~~~~E~~Iy~k~~~~s~~~~~~~aP~~le~aa~  347 (361)
T smart00763      315 RVSEEAQIYEKLLRNSDLTEAHIAPHTLEMAAL  347 (361)
T ss_pred             CHHHHHHHHHHHhccCcCcccccCchHHHHHHH
Confidence             455566666666543   44566666665554

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=98.66  E-value=4.7e-07  Score=97.29  Aligned_cols=136  Identities=17%  Similarity=0.161  Sum_probs=78.0

Q ss_pred             cccccHHHHHHHHHHHhcCC------------------C---CeEEEECCCCCcHHHHHHHHHHHhcCCcc--ccceEEe
Q psy12150         46 DVIEQQEVVSVLKKCLSGAD------------------L---PHFLFYGPPGTGKTSTMIAACHQLFGDMY--RERILEL  102 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~~------------------~---~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~--~~~~~e~  102 (456)
                      .|.|++.++..+.-.+-+|.                  .   .|+||.|+||+|||.+++.+++......+  ......+
T Consensus       451 ~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~v  530 (915)
T PTZ00111        451 SIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSV  530 (915)
T ss_pred             eEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccc
Confidence            45677777766655543321                  1   15999999999999999999985322110  0011122


Q ss_pred             eCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-------------Ccce
Q psy12150        103 NASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTR  169 (456)
Q Consensus       103 n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-------------~~~~  169 (456)
                      ++...   . .  . .... ........+....++..+++|||++.|+...+..|++.|++..             ..+.
T Consensus       531 gLTa~---~-~--~-~d~~-tG~~~le~GaLvlAdgGtL~IDEidkms~~~Q~aLlEaMEqqtIsI~KaGi~~tL~ar~r  602 (915)
T PTZ00111        531 GLTAS---I-K--F-NESD-NGRAMIQPGAVVLANGGVCCIDELDKCHNESRLSLYEVMEQQTVTIAKAGIVATLKAETA  602 (915)
T ss_pred             cccch---h-h--h-cccc-cCcccccCCcEEEcCCCeEEecchhhCCHHHHHHHHHHHhCCEEEEecCCcceecCCCeE
Confidence            22110   0 0  0 0000 0000000000011355699999999999999999999998642             3466


Q ss_pred             EEEEecCc-------------ccccccccCCce
Q psy12150        170 FCLICNYV-------------SCIIQPLTSRCS  189 (456)
Q Consensus       170 lIl~~~~~-------------~kl~~~l~~r~~  189 (456)
                      +|.++|+.             -.+.++|.+|+.
T Consensus       603 VIAAaNP~~gryd~~~s~~eni~Lp~~LLSRFD  635 (915)
T PTZ00111        603 ILASCNPINSRYNKNKAVIENINISPSLFTRFD  635 (915)
T ss_pred             EEEEcCCcccccCcccCcccccCCChHHhhhhc
Confidence            77777752             124577888875

>KOG0741|consensus

Probab=98.64  E-value=3.6e-08  Score=97.90  Aligned_cols=152  Identities=20%  Similarity=0.236  Sum_probs=93.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC------CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEE
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD------DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVI  142 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~------~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~ivi  142 (456)
                      +|||||||||||..|+.+.+-+++....  ++  |+..      ..+.+.+++...++.......    | ..++-+|||
T Consensus       259 iLLyGPPGTGKTLiARqIGkMLNArePK--IV--NGPeIL~KYVGeSE~NvR~LFaDAEeE~r~~----g-~~SgLHIII  329 (744)
T KOG0741|consen  259 ILLYGPPGTGKTLIARQIGKMLNAREPK--IV--NGPEILNKYVGESEENVRKLFADAEEEQRRL----G-ANSGLHIII  329 (744)
T ss_pred             EEEECCCCCChhHHHHHHHHHhcCCCCc--cc--CcHHHHHHhhcccHHHHHHHHHhHHHHHHhh----C-ccCCceEEE
Confidence            9999999999999999999999874331  22  2221      223345555555544332211    1 113567999


Q ss_pred             EcCCCCccHH-------------HHHHHHHHHHhc--cCcceEEEEecCcccccccccCCce---EEEecCCCHHHHHHH
Q psy12150        143 LDEADSMTHA-------------AQAALRRTMEKE--TKSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTR  204 (456)
Q Consensus       143 IDE~d~l~~~-------------~~~~Ll~~le~~--~~~~~lIl~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~  204 (456)
                      +||+|.+.+.             ..+.|+.-|+..  -.+..+|-.+|+++-+..+|.+.+.   .+++.-|++.-..++
T Consensus       330 FDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeqLNNILVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQI  409 (744)
T KOG0741|consen  330 FDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQLNNILVIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQI  409 (744)
T ss_pred             ehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccHHhhhcEEEEeccCchhhHHHHhcCCCceEEEEEEeCCCccCceEE
Confidence            9999998653             244555444321  1345666677888888888887765   567777887776666


Q ss_pred             HHHHHH---HcCCCCCHHHHHHHHHHcC
Q psy12150        205 LQYICE---QESVMCDFKALETLVETSG  229 (456)
Q Consensus       205 l~~~~~---~~~~~i~~~~l~~L~~~s~  229 (456)
                      ++-+-+   ..++--++-.++.|+.++.
T Consensus       410 l~IHT~rMre~~~l~~dVdl~elA~lTK  437 (744)
T KOG0741|consen  410 LKIHTKRMRENNKLSADVDLKELAALTK  437 (744)
T ss_pred             EEhhhhhhhhcCCCCCCcCHHHHHHHhc
Confidence            654333   2333223444667777653

>PRK12377 putative replication protein; Provisional

Probab=98.64  E-value=1.4e-07  Score=88.27  Aligned_cols=125  Identities=20%  Similarity=0.302  Sum_probs=73.2

Q ss_pred             hccCCCCccccc----ccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh
Q psy12150         37 EKYRPKTIDDVI----EQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (456)
Q Consensus        37 eky~P~~~~~iv----g~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~  110 (456)
                      ..+...+|+.+.    |+..++.....+++..  ...+++|+||||||||+++.++++.+.....  .++.++..+  ..
T Consensus        66 ~~~~~~tFdnf~~~~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~--~v~~i~~~~--l~  141 (248)
T PRK12377         66 PLHRKCSFANYQVQNDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGR--SVIVVTVPD--VM  141 (248)
T ss_pred             cccccCCcCCcccCChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCC--CeEEEEHHH--HH
Confidence            345556777775    3334555555554422  2345999999999999999999999865443  344444332  11


Q ss_pred             HHHHHHH------HHHHHhhccCCCCCCCCCCCcEEEEEcCC--CCccHHHHHHHHHHHHhccC-cceEEEEecC
Q psy12150        111 QVIRDKV------KTFAQQTASGFNQDGKPCPPFKIVILDEA--DSMTHAAQAALRRTMEKETK-STRFCLICNY  176 (456)
Q Consensus       111 ~~i~~~l------~~~~~~~~~~~~~~~~~~~~~~iviIDE~--d~l~~~~~~~Ll~~le~~~~-~~~lIl~~~~  176 (456)
                      ..+....      ..+....           ....+|||||+  ...+...++.|..+++.... ....|+++|.
T Consensus       142 ~~l~~~~~~~~~~~~~l~~l-----------~~~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl  205 (248)
T PRK12377        142 SRLHESYDNGQSGEKFLQEL-----------CKVDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNL  205 (248)
T ss_pred             HHHHHHHhccchHHHHHHHh-----------cCCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCC
Confidence            1111111      0011000           13449999999  45566677888888876443 2345667774

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=98.63  E-value=2.4e-06  Score=83.76  Aligned_cols=214  Identities=16%  Similarity=0.126  Sum_probs=122.2

Q ss_pred             cccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEE---eeCCCCcCh---HHHHHH-
Q psy12150         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE---LNASDDRGI---QVIRDK-  116 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e---~n~~~~~~~---~~i~~~-  116 (456)
                      |..++|++.....|....-......+||-|+.|+||||++++++.-|-..    .++.   ++|......   +..+.+ 
T Consensus        16 f~aivGqd~lk~aL~l~av~P~iggvLI~G~kGtaKSt~~Rala~LLp~~----~~V~gc~f~cdP~~P~~~c~~c~~k~   91 (423)
T COG1239          16 FTAIVGQDPLKLALGLNAVDPQIGGALIAGEKGTAKSTLARALADLLPEI----EVVIGCPFNCDPDDPEEMCDECRAKG   91 (423)
T ss_pred             hhhhcCchHHHHHHhhhhcccccceeEEecCCCccHHHHHHHHHHhCCcc----ceecCCCCCCCCCChhhhhHHHHhhc
Confidence            67789999888776555444455569999999999999999999976321    1111   111111110   000000 


Q ss_pred             --------------------------------HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc
Q psy12150        117 --------------------------------VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (456)
Q Consensus       117 --------------------------------l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~  164 (456)
                                                      +..........+.+.-.+.+++.|+.|||+..|....++.|+..++..
T Consensus        92 ~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~d~lvd~LLd~aaeG  171 (423)
T COG1239          92 DELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLDDHLVDALLDVAAEG  171 (423)
T ss_pred             cccccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccccHHHHHHHHHHHHhC
Confidence                                            000111111111111122368889999999999999999999998763


Q ss_pred             -------------cCcceEEEEecC-cccccccccCCce-EEEecCCC-HHHHHHHHHHHHHH-----------------
Q psy12150        165 -------------TKSTRFCLICNY-VSCIIQPLTSRCS-KFRFKPLA-ENTMLTRLQYICEQ-----------------  211 (456)
Q Consensus       165 -------------~~~~~lIl~~~~-~~kl~~~l~~r~~-~i~f~~~~-~~el~~~l~~~~~~-----------------  211 (456)
                                   +..+++|.+.|. ...+.++|+.|+. .+...++. .++...++.+...-                 
T Consensus       172 ~n~vereGisi~hpa~fvligTmNPEeGeLrpqLlDRfg~~v~~~~~~~~~~rv~Ii~r~~~f~~~Pe~f~~~~~~~~~~  251 (423)
T COG1239         172 VNDVEREGISIRHPARFLLIGTMNPEEGELRPQLLDRFGLEVDTHYPLDLEERVEIIRRRLAFEAVPEAFLEKYADAQRA  251 (423)
T ss_pred             CceeeeCceeeccCccEEEEeecCccccccchhhHhhhcceeeccCCCCHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHH
Confidence                         334566666664 4678899999965 66665554 34444444443331                 


Q ss_pred             ------------cCCCCCHHHHHHHHHHc-----CCCHHHHHHHHH---HHHHhhCCCCCCHHHHHHHhCC
Q psy12150        212 ------------ESVMCDFKALETLVETS-----GGDMRRAITCLQ---SCARLKGGEGIVNEDVLEVTGV  262 (456)
Q Consensus       212 ------------~~~~i~~~~l~~L~~~s-----~gdlr~~~~~L~---~~~~~~~~~~It~~~v~~~~~~  262 (456)
                                  ..+.+++++...++..+     .| .|..+...+   .++.+.+..+++.+|+++....
T Consensus       252 lR~~ii~ar~~l~~V~l~~~~~~~ia~~~~~~~v~g-~radi~~~r~a~a~aa~~Gr~~v~~~Di~~a~~l  321 (423)
T COG1239         252 LRARIIAARSLLSEVELDDDAETKIAELCARLAVDG-HRADIVVVRAAKALAALRGRTEVEEEDIREAAEL  321 (423)
T ss_pred             HHHHHHHHHhccccccCcHHHHHHHHHHHHHhccCC-CchhhHHHHHHHHHHHhcCceeeehhhHHHHHhh
Confidence                        12345666665555543     12 333333332   2233335667777777766543

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.60  E-value=1.7e-06  Score=88.82  Aligned_cols=216  Identities=19%  Similarity=0.155  Sum_probs=122.4

Q ss_pred             CCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC-------------Cc
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD-------------DR  108 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~-------------~~  108 (456)
                      ..|.++.|+..+++.+.-.+.++  .+++|.||+|+|||++++.+...+..... ...++...-.             .+
T Consensus       188 ~d~~~v~Gq~~~~~al~laa~~G--~~llliG~~GsGKTtLak~L~gllpp~~g-~e~le~~~i~s~~g~~~~~~~~~~r  264 (506)
T PRK09862        188 HDLSDVIGQEQGKRGLEITAAGG--HNLLLIGPPGTGKTMLASRINGLLPDLSN-EEALESAAILSLVNAESVQKQWRQR  264 (506)
T ss_pred             cCeEEEECcHHHHhhhheeccCC--cEEEEECCCCCcHHHHHHHHhccCCCCCC-cEEEecchhhhhhccccccCCcCCC
Confidence            37889999998888876666554  36999999999999999999876532111 0112211100             00


Q ss_pred             ChHHHHHHHHHHHHhhccCCCCCCCC----CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-------------CcceEE
Q psy12150        109 GIQVIRDKVKTFAQQTASGFNQDGKP----CPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTRFC  171 (456)
Q Consensus       109 ~~~~i~~~l~~~~~~~~~~~~~~~~~----~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-------------~~~~lI  171 (456)
                      .....-....   .....+.....+|    .++..++|+||++.+....++.|++.|++..             ..+.+|
T Consensus       265 Pfr~ph~~~s---~~~l~GGg~~~~pG~l~~A~gGvLfLDEi~e~~~~~~~~L~~~LE~g~v~I~r~g~~~~~pa~f~lI  341 (506)
T PRK09862        265 PFRSPHHSAS---LTAMVGGGAIPGPGEISLAHNGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLV  341 (506)
T ss_pred             CccCCCccch---HHHHhCCCceehhhHhhhccCCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcceeccCCEEEE
Confidence            0000000000   0000000000111    1456699999999999999999999997532             345677


Q ss_pred             EEecCc---------------------ccccccccCCce-EEEecCCCHHH-------------HHHHHH---HHHHHc-
Q psy12150        172 LICNYV---------------------SCIIQPLTSRCS-KFRFKPLAENT-------------MLTRLQ---YICEQE-  212 (456)
Q Consensus       172 l~~~~~---------------------~kl~~~l~~r~~-~i~f~~~~~~e-------------l~~~l~---~~~~~~-  212 (456)
                      .++|..                     .++..++.+|+. .+.+++++.++             +++.+.   .+...+ 
T Consensus       342 Aa~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLDRfdL~v~v~~~~~~~l~~~~~~~ess~~i~~rV~~ar~~q~~r~  421 (506)
T PRK09862        342 AAMNPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLDRFDLSLEIPLPPPGILSKTVVPGESSATVKQRVMAARERQFKRQ  421 (506)
T ss_pred             EeecCccceecCCCCCCcCHHHHHHHHhhCCHhHHhhccEEEEeCCCCHHHHhcccCCCCChHHHHHHHhhHHHHHHHHH
Confidence            777642                     135567888887 56777664322             322221   000000 


Q ss_pred             ---C-----------CCCCHHHHHHHH---HHcCCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCC
Q psy12150        213 ---S-----------VMCDFKALETLV---ETSGGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       213 ---~-----------~~i~~~~l~~L~---~~s~gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~~~  263 (456)
                         +           +.+++++...+.   ...+-+.|.....+.-+...+   +...|+.+||.+++.-.
T Consensus       422 ~~~n~~l~~~~l~~~~~l~~~~~~~l~~~~~~~~lS~Ra~~rlLrvARTiADL~g~~~V~~~hv~eAl~yR  492 (506)
T PRK09862        422 NKLNAWLDSPEIRQFCKLESEDARWLEETLIHLGLSIRAWQRLLKVARTIADIDQSDIITRQHLQEAVSYR  492 (506)
T ss_pred             HHHhcccCHHHHHHHhCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHhh
Confidence               1           234444444332   233446777777765554444   78899999999888744

>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=98.59  E-value=1.5e-08  Score=83.51  Aligned_cols=84  Identities=25%  Similarity=0.231  Sum_probs=47.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCC-----CCCCCCCcEEEE
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ-----DGKPCPPFKIVI  142 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~-----~~~~~~~~~ivi  142 (456)
                      |+||.|+||+|||++++++++.+..+     +..+.+..+....++..       ........     ...|. -..+++
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~-----f~RIq~tpdllPsDi~G-------~~v~~~~~~~f~~~~GPi-f~~ill   67 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLS-----FKRIQFTPDLLPSDILG-------FPVYDQETGEFEFRPGPI-FTNILL   67 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT-------EEEEE--TT--HHHHHE-------EEEEETTTTEEEEEE-TT--SSEEE
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCc-----eeEEEecCCCCccccee-------eeeeccCCCeeEeecChh-hhceee
Confidence            58999999999999999999998654     33344432222222211       11000000     00111 224999


Q ss_pred             EcCCCCccHHHHHHHHHHHHhc
Q psy12150        143 LDEADSMTHAAQAALRRTMEKE  164 (456)
Q Consensus       143 IDE~d~l~~~~~~~Ll~~le~~  164 (456)
                      +||+.+.++..|.+|++.|++.
T Consensus        68 ~DEiNrappktQsAlLeam~Er   89 (131)
T PF07726_consen   68 ADEINRAPPKTQSALLEAMEER   89 (131)
T ss_dssp             EETGGGS-HHHHHHHHHHHHHS
T ss_pred             ecccccCCHHHHHHHHHHHHcC
Confidence            9999999999999999999874

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.

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.57  E-value=6.2e-07  Score=84.18  Aligned_cols=86  Identities=21%  Similarity=0.242  Sum_probs=58.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC----hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEE
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG----IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVIL  143 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~----~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviI  143 (456)
                      |+|+.||.|+|||.+|+.+++.++-     ++.--++.....    .+++.+.+..+.+.......     .+.+.+|+|
T Consensus        99 NILLiGPTGsGKTlLAqTLAk~LnV-----PFaiADATtLTEAGYVGEDVENillkLlqaadydV~-----rAerGIIyI  168 (408)
T COG1219          99 NILLIGPTGSGKTLLAQTLAKILNV-----PFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE-----RAERGIIYI  168 (408)
T ss_pred             cEEEECCCCCcHHHHHHHHHHHhCC-----CeeeccccchhhccccchhHHHHHHHHHHHcccCHH-----HHhCCeEEE
Confidence            4999999999999999999998743     344444443222    23455555555554432211     135569999


Q ss_pred             cCCCCccH--------------HHHHHHHHHHHh
Q psy12150        144 DEADSMTH--------------AAQAALRRTMEK  163 (456)
Q Consensus       144 DE~d~l~~--------------~~~~~Ll~~le~  163 (456)
                      ||+|.+..              ..|++|++++|.
T Consensus       169 DEIDKIarkSeN~SITRDVSGEGVQQALLKiiEG  202 (408)
T COG1219         169 DEIDKIARKSENPSITRDVSGEGVQQALLKIIEG  202 (408)
T ss_pred             echhhhhccCCCCCcccccCchHHHHHHHHHHcC
Confidence            99999853              368999999974

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.52  E-value=1.8e-06  Score=72.87  Aligned_cols=99  Identities=24%  Similarity=0.210  Sum_probs=57.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChH----------------HHHHHHHHHHHhhccCCCC
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ----------------VIRDKVKTFAQQTASGFNQ  130 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~----------------~i~~~l~~~~~~~~~~~~~  130 (456)
                      .+++|+||||+|||++++.++..+....  ..++.++++......                .-..............   
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---   77 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKL---   77 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhc---
Confidence            3599999999999999999999886643  134555444321110                0011111111111111   


Q ss_pred             CCCCCCCcEEEEEcCCCCccHHHHHHHHH--------HHHhccCcceEEEEecC
Q psy12150        131 DGKPCPPFKIVILDEADSMTHAAQAALRR--------TMEKETKSTRFCLICNY  176 (456)
Q Consensus       131 ~~~~~~~~~iviIDE~d~l~~~~~~~Ll~--------~le~~~~~~~lIl~~~~  176 (456)
                            ...+|++||++.+..........        ..........+|+++|.
T Consensus        78 ------~~~viiiDei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  125 (148)
T smart00382       78 ------KPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTND  125 (148)
T ss_pred             ------CCCEEEEECCcccCCHHHHHHHHhhhhhHHHHHHHhcCCCEEEEEeCC
Confidence                  12499999999998765544332        22334455667777774

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.

>PRK08181 transposase; Validated

Probab=98.51  E-value=5.4e-07  Score=85.45  Aligned_cols=109  Identities=20%  Similarity=0.313  Sum_probs=60.8

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCC
Q psy12150         56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPC  135 (456)
Q Consensus        56 ~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~  135 (456)
                      .+..|+..+  .+++|+||+|+|||+++.++++++.....  .++.++..+      +.+.+..........  ..-...
T Consensus        98 ~~~~~~~~~--~nlll~Gp~GtGKTHLa~Aia~~a~~~g~--~v~f~~~~~------L~~~l~~a~~~~~~~--~~l~~l  165 (269)
T PRK08181         98 AGDSWLAKG--ANLLLFGPPGGGKSHLAAAIGLALIENGW--RVLFTRTTD------LVQKLQVARRELQLE--SAIAKL  165 (269)
T ss_pred             HHHHHHhcC--ceEEEEecCCCcHHHHHHHHHHHHHHcCC--ceeeeeHHH------HHHHHHHHHhCCcHH--HHHHHH
Confidence            344677644  46999999999999999999988754433  344443322      112111110000000  000000


Q ss_pred             CCcEEEEEcCCCCccH--HHHHHHHHHHHhccCcceEEEEecC
Q psy12150        136 PPFKIVILDEADSMTH--AAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       136 ~~~~iviIDE~d~l~~--~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      ....+|||||++....  ...+.|.++++.......+|+++|.
T Consensus       166 ~~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~  208 (269)
T PRK08181        166 DKFDLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQ  208 (269)
T ss_pred             hcCCEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCC
Confidence            1334999999987744  3455677777653333456677774

>PRK08116 hypothetical protein; Validated

Probab=98.51  E-value=6e-07  Score=85.49  Aligned_cols=147  Identities=16%  Similarity=0.232  Sum_probs=83.2

Q ss_pred             hccCCCCccccccc---HHHHHHHHHHHhc----CC-CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         37 EKYRPKTIDDVIEQ---QEVVSVLKKCLSG----AD-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        37 eky~P~~~~~ivg~---~~~~~~l~~~l~~----~~-~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      ++|.-.+|+.+...   ..++...++++++    .. ..+++|+|++|+|||+++.++++.+.....  .++.++..+. 
T Consensus        77 ~~~~~~tFdnf~~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~--~v~~~~~~~l-  153 (268)
T PRK08116         77 EKFRNSTFENFLFDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKGV--PVIFVNFPQL-  153 (268)
T ss_pred             HHHHhcchhcccCChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcCC--eEEEEEHHHH-
Confidence            45555677776532   2334445544442    11 123999999999999999999999865422  4555554321 


Q ss_pred             ChHHHHHHH--------HHHHHhhccCCCCCCCCCCCcEEEEEcCC--CCccHHHHHHHHHHHHhc-cCcceEEEEecCc
Q psy12150        109 GIQVIRDKV--------KTFAQQTASGFNQDGKPCPPFKIVILDEA--DSMTHAAQAALRRTMEKE-TKSTRFCLICNYV  177 (456)
Q Consensus       109 ~~~~i~~~l--------~~~~~~~~~~~~~~~~~~~~~~iviIDE~--d~l~~~~~~~Ll~~le~~-~~~~~lIl~~~~~  177 (456)
                       ...+....        ..+....           ....+|||||+  +..+...++.|..+++.. .....+|+++|..
T Consensus       154 -l~~i~~~~~~~~~~~~~~~~~~l-----------~~~dlLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        154 -LNRIKSTYKSSGKEDENEIIRSL-----------VNADLLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             -HHHHHHHHhccccccHHHHHHHh-----------cCCCEEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence             11111110        0011000           13349999999  455666777788777653 2334567777753


Q ss_pred             c-c----ccccccCC----ceEEEecCCCH
Q psy12150        178 S-C----IIQPLTSR----CSKFRFKPLAE  198 (456)
Q Consensus       178 ~-k----l~~~l~~r----~~~i~f~~~~~  198 (456)
                      . .    +...+.+|    |..+.|...+.
T Consensus       222 ~~eL~~~~~~ri~sRl~e~~~~v~~~g~d~  251 (268)
T PRK08116        222 LEELKNQYGKRIYDRILEMCTPVENEGKSY  251 (268)
T ss_pred             HHHHHHHHhHHHHHHHHHcCEEEEeeCcCh
Confidence            2 2    23345555    55677766553

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.49  E-value=5.4e-06  Score=86.89  Aligned_cols=190  Identities=14%  Similarity=0.108  Sum_probs=117.9

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEe--eCCCCc--ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEE
Q psy12150         65 DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL--NASDDR--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKI  140 (456)
Q Consensus        65 ~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~--n~~~~~--~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~i  140 (456)
                      ....++|.|+.|++|+++++.++.-+-..   .+++.+  +.++..  +..++...+..    ......+.--..+++.|
T Consensus        24 ~~gGv~i~g~~G~~ks~~~r~l~~llp~~---~p~r~~p~~~t~~~L~Gg~Dl~~~l~~----g~~~~~pGlla~Ah~Gv   96 (584)
T PRK13406         24 GLGGVVLRARAGPVRDRWLAALRALLPAG---TPLRRLPPGIADDRLLGGLDLAATLRA----GRPVAQRGLLAEADGGV   96 (584)
T ss_pred             ccceEEEEcCCCcHHHHHHHHHHHhcCCC---CCcccCCCCCcHHHccCCchHHhHhhc----CCcCCCCCceeeccCCE
Confidence            44569999999999999999999876431   233332  333211  12222222211    11000111011146679


Q ss_pred             EEEcCCCCccHHHHHHHHHHHHhccC-------------cceEEEEec---CcccccccccCCce-EEEecCCCHHHHH-
Q psy12150        141 VILDEADSMTHAAQAALRRTMEKETK-------------STRFCLICN---YVSCIIQPLTSRCS-KFRFKPLAENTML-  202 (456)
Q Consensus       141 viIDE~d~l~~~~~~~Ll~~le~~~~-------------~~~lIl~~~---~~~kl~~~l~~r~~-~i~f~~~~~~el~-  202 (456)
                      +|+||+..+.+..++.|++.|++...             ...+|.+-+   +..++.+++..|+. .+.+..++..+.. 
T Consensus        97 L~lDe~n~~~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLDRf~l~v~v~~~~~~~~~~  176 (584)
T PRK13406         97 LVLAMAERLEPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALADRLAFHLDLDGLALRDARE  176 (584)
T ss_pred             EEecCcccCCHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHhheEEEEEcCCCChHHhcc
Confidence            99999999999999999999987432             222332211   12447778999987 6777777755432 


Q ss_pred             ------HHHHHHHHHcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        203 ------TRLQYICEQESVMCDFKALETLVETS---GG-DMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       203 ------~~l~~~~~~~~~~i~~~~l~~L~~~s---~g-dlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                            ++...+..-.++.++++.++.++..+   +- ..|..+..+.-+..++   +...|+.+||.+++.
T Consensus       177 ~~~~~~~I~~AR~rl~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~Aa~  248 (584)
T PRK13406        177 IPIDADDIAAARARLPAVGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALAAR  248 (584)
T ss_pred             cCCCHHHHHHHHHHHccCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence                  22222222247889999999877654   32 6677777776554444   788999999998864

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.49  E-value=2.3e-06  Score=79.52  Aligned_cols=193  Identities=17%  Similarity=0.162  Sum_probs=115.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc-CCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCC--CC-CCCCCcEEEEE
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF-GDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ--DG-KPCPPFKIVIL  143 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~-~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~--~~-~~~~~~~iviI  143 (456)
                      ++|+.||.|.||+.+++.+..--. ...+...++++||...++-............ ++.+...  .| ..+++...+|+
T Consensus       210 p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkg-aftga~~~r~gllrsadggmlfl  288 (531)
T COG4650         210 PILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKG-AFTGARESREGLLRSADGGMLFL  288 (531)
T ss_pred             CeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhcc-ccccchhhhhhhhccCCCceEeh
Confidence            499999999999999999875321 2344568999999987776554443332211 1111000  00 01245569999


Q ss_pred             cCCCCccHHHHHHHHHHHHhccC-----------cceEEEEec-C------cccccccccCCceEEEecCCCH----HHH
Q psy12150        144 DEADSMTHAAQAALRRTMEKETK-----------STRFCLICN-Y------VSCIIQPLTSRCSKFRFKPLAE----NTM  201 (456)
Q Consensus       144 DE~d~l~~~~~~~Ll~~le~~~~-----------~~~lIl~~~-~------~~kl~~~l~~r~~~i~f~~~~~----~el  201 (456)
                      ||+..|..+.|..|++.+++..-           ...+|..+- +      ...+-+.+..|...+.|.-|.-    +++
T Consensus       289 deigelgadeqamllkaieekrf~pfgsdr~v~sdfqliagtvrdlrq~vaeg~fredl~arinlwtf~lpgl~qr~edi  368 (531)
T COG4650         289 DEIGELGADEQAMLLKAIEEKRFYPFGSDRQVSSDFQLIAGTVRDLRQLVAEGKFREDLYARINLWTFTLPGLRQRQEDI  368 (531)
T ss_pred             HhhhhcCccHHHHHHHHHHhhccCCCCCccccccchHHhhhhHHHHHHHHhccchHHHHHHhhheeeeeccccccCcccc
Confidence            99999999999999999986421           111222111 0      0112233444544444443321    111


Q ss_pred             ----HHHHHHHHHHcC--CCCCHHHHHHHHH-------HcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy12150        202 ----LTRLQYICEQES--VMCDFKALETLVE-------TSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (456)
Q Consensus       202 ----~~~l~~~~~~~~--~~i~~~~l~~L~~-------~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~  261 (456)
                          ---|...+...|  +.+..++-..-..       ...||.|++-.-+-..+..+.++.||.+.|++-+.
T Consensus       369 epnldyelerha~~~g~~vrfntearra~l~fa~spqa~w~gnfrelsasvtrmatlad~grit~~~ve~ei~  441 (531)
T COG4650         369 EPNLDYELERHASLTGDSVRFNTEARRAWLAFATSPQATWRGNFRELSASVTRMATLADSGRITLDVVEDEIN  441 (531)
T ss_pred             CCCccHHHHHHHHhhCceeeeehHHHHHHHHhccCcchhhcccHHHHhHHHHHHHHHhcCCceeHHHHHHHHH
Confidence                122444454444  4556665544332       23699999999998888888888999998876554

>PF05729 NACHT: NACHT domain

Probab=98.48  E-value=1.1e-06  Score=77.20  Aligned_cols=142  Identities=13%  Similarity=0.160  Sum_probs=78.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCcccc----ceEEeeCCCCcChH---HHHHHHHHHHHhhccCCCC---CCCCCCCc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRE----RILELNASDDRGIQ---VIRDKVKTFAQQTASGFNQ---DGKPCPPF  138 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~----~~~e~n~~~~~~~~---~i~~~l~~~~~~~~~~~~~---~~~~~~~~  138 (456)
                      ++|+|++|+|||++++.++..+.......    -++.++........   .+.+.+.............   .......+
T Consensus         3 l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   82 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNKR   82 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCCc
Confidence            79999999999999999998876543211    12233333221111   2222222211110000000   00000234


Q ss_pred             EEEEEcCCCCccHHHH--------HHHHHHHHh-ccCcceEEEEecCccc-ccccccCCceEEEecCCCHHHHHHHHHHH
Q psy12150        139 KIVILDEADSMTHAAQ--------AALRRTMEK-ETKSTRFCLICNYVSC-IIQPLTSRCSKFRFKPLAENTMLTRLQYI  208 (456)
Q Consensus       139 ~iviIDE~d~l~~~~~--------~~Ll~~le~-~~~~~~lIl~~~~~~k-l~~~l~~r~~~i~f~~~~~~el~~~l~~~  208 (456)
                      -++|||.+|.+.....        +.|..++.. ..+.+.+++++..... -..........+.+.+++++++.+++++.
T Consensus        83 ~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  162 (166)
T PF05729_consen   83 VLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLRKY  162 (166)
T ss_pred             eEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHHHH
Confidence            4899999999876332        234455655 3456667777654321 12222233367899999999999999887


Q ss_pred             HH
Q psy12150        209 CE  210 (456)
Q Consensus       209 ~~  210 (456)
                      ++
T Consensus       163 f~  164 (166)
T PF05729_consen  163 FS  164 (166)
T ss_pred             hh
Confidence            65

>KOG1051|consensus

Probab=98.46  E-value=1e-06  Score=94.60  Aligned_cols=117  Identities=23%  Similarity=0.394  Sum_probs=84.0

Q ss_pred             cccccHHHHHHHHHHHhcCC-------CCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc---------
Q psy12150         46 DVIEQQEVVSVLKKCLSGAD-------LPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR---------  108 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~~-------~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~---------  108 (456)
                      .++||++++..+..++...+       +.. ++|.||.|+|||.+|++++..+++...  .++.++.+...         
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~--~~IriDmse~~evskligsp  640 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEE--NFIRLDMSEFQEVSKLIGSP  640 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCcc--ceEEechhhhhhhhhccCCC
Confidence            56899999998888875322       222 999999999999999999999977544  57777776411         


Q ss_pred             ----ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEE
Q psy12150        109 ----GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLI  173 (456)
Q Consensus       109 ----~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~  173 (456)
                          +..... .+.+....            .++.||++||++.-....++.|++.+++..           .+++||++
T Consensus       641 ~gyvG~e~gg-~Lteavrr------------rP~sVVLfdeIEkAh~~v~n~llq~lD~GrltDs~Gr~Vd~kN~I~IMT  707 (898)
T KOG1051|consen  641 PGYVGKEEGG-QLTEAVKR------------RPYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSHGREVDFKNAIFIMT  707 (898)
T ss_pred             cccccchhHH-HHHHHHhc------------CCceEEEEechhhcCHHHHHHHHHHHhcCccccCCCcEeeccceEEEEe
Confidence                111111 11111111            366799999999999999999999998643           46889998


Q ss_pred             ecCc
Q psy12150        174 CNYV  177 (456)
Q Consensus       174 ~~~~  177 (456)
                      +|.-
T Consensus       708 sn~~  711 (898)
T KOG1051|consen  708 SNVG  711 (898)
T ss_pred             cccc
Confidence            8753

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.45  E-value=9.7e-07  Score=82.48  Aligned_cols=133  Identities=17%  Similarity=0.277  Sum_probs=73.4

Q ss_pred             hhccCCCCcccccc----cHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC
Q psy12150         36 VEKYRPKTIDDVIE----QQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (456)
Q Consensus        36 ~eky~P~~~~~ivg----~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~  109 (456)
                      .+.|++.+|+++..    +..++..+.+++++..  ..+++|+|++|+|||+++.++++.+.....  .++.++..+   
T Consensus        63 ~~~~~~~tFdnf~~~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~--~v~~it~~~---  137 (244)
T PRK07952         63 RPLHQNCSFENYRVECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGK--SVLIITVAD---  137 (244)
T ss_pred             CccccCCccccccCCCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCC--eEEEEEHHH---
Confidence            45677788988863    3345666777765422  235999999999999999999999865433  444444322   


Q ss_pred             hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--HHHHHHHHHHhc-cCcceEEEEecC
Q psy12150        110 IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--AQAALRRTMEKE-TKSTRFCLICNY  176 (456)
Q Consensus       110 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--~~~~Ll~~le~~-~~~~~lIl~~~~  176 (456)
                         +...+..............-.......+|||||++.....  ..+.|..+++.. ......|+++|.
T Consensus       138 ---l~~~l~~~~~~~~~~~~~~l~~l~~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl  204 (244)
T PRK07952        138 ---IMSAMKDTFSNSETSEEQLLNDLSNVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNS  204 (244)
T ss_pred             ---HHHHHHHHHhhccccHHHHHHHhccCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence               1111111000000000000000013449999999876432  344566666643 223445667774

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.44  E-value=3.5e-07  Score=90.81  Aligned_cols=121  Identities=24%  Similarity=0.289  Sum_probs=71.5

Q ss_pred             CCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC------CCCcChH---
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA------SDDRGIQ---  111 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~------~~~~~~~---  111 (456)
                      ...|.|++||+..++.+.-+..+|  +|++++||||||||.+++.+..-+- +......+|++.      ....+..   
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAAAGg--HnLl~~GpPGtGKTmla~Rl~~lLP-pls~~E~lE~s~I~s~~g~~~~~~~~~~  251 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAAAGG--HNLLLVGPPGTGKTMLASRLPGLLP-PLSIPEALEVSAIHSLAGDLHEGCPLKI  251 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHHhcC--CcEEEecCCCCchHHhhhhhcccCC-CCChHHHHHHHHHhhhcccccccCccce
Confidence            347999999999999999998877  3699999999999999999876441 111111111110      0000000   


Q ss_pred             --HHHHHHHHHHHhhccCCCCCCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhc
Q psy12150        112 --VIRDKVKTFAQQTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKE  164 (456)
Q Consensus       112 --~i~~~l~~~~~~~~~~~~~~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~  164 (456)
                        .++.---..+.....+.+...+|+    ++..|+|+||+..+.....+.|+.=||+.
T Consensus       252 ~rPFr~PHHsaS~~aLvGGG~~p~PGeIsLAH~GVLFLDElpef~~~iLe~LR~PLE~g  310 (490)
T COG0606         252 HRPFRAPHHSASLAALVGGGGVPRPGEISLAHNGVLFLDELPEFKRSILEALREPLENG  310 (490)
T ss_pred             eCCccCCCccchHHHHhCCCCCCCCCceeeecCCEEEeeccchhhHHHHHHHhCccccC
Confidence              000000000000000111111222    56779999999999998889888888764

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

Probab=98.44  E-value=4.2e-07  Score=76.68  Aligned_cols=107  Identities=17%  Similarity=0.272  Sum_probs=61.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCcc---ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCC---------CC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMY---RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK---------PC  135 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~---~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~---------~~  135 (456)
                      .++++||+|+|||++++.+++.+.....   ...++.+++........+...+................         ..
T Consensus         6 ~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~~   85 (131)
T PF13401_consen    6 ILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALDR   85 (131)
T ss_dssp             -EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHHH
T ss_pred             ccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHHh
Confidence            4899999999999999999998742100   23566666655444444443333332221111000000         00


Q ss_pred             CCcEEEEEcCCCCc-cHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        136 PPFKIVILDEADSM-THAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       136 ~~~~iviIDE~d~l-~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      ....+|||||+|.+ ..+..+.|..+.+  ...+.+|+++.+
T Consensus        86 ~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   86 RRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             CTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             cCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            12349999999999 8777777776666  445667777654

>KOG0745|consensus

Probab=98.44  E-value=2e-06  Score=83.83  Aligned_cols=169  Identities=20%  Similarity=0.250  Sum_probs=106.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh----HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEE
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI----QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVIL  143 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~----~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviI  143 (456)
                      ++|+.||.|+|||.+++.+++-++     .++.-.+|....-.    +++...+..+...+......     +.+.||||
T Consensus       228 NvLllGPtGsGKTllaqTLAr~ld-----VPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVek-----AQqGIVfl  297 (564)
T KOG0745|consen  228 NVLLLGPTGSGKTLLAQTLARVLD-----VPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEK-----AQQGIVFL  297 (564)
T ss_pred             cEEEECCCCCchhHHHHHHHHHhC-----CCeEEecccchhhcccccccHHHHHHHHHHHccCCHHH-----HhcCeEEE
Confidence            499999999999999999999863     35666677653222    23444444444333221110     23449999


Q ss_pred             cCCCCccH--------------HHHHHHHHHHHhc--------c-----C------cceEEEEecC--------------
Q psy12150        144 DEADSMTH--------------AAQAALRRTMEKE--------T-----K------STRFCLICNY--------------  176 (456)
Q Consensus       144 DE~d~l~~--------------~~~~~Ll~~le~~--------~-----~------~~~lIl~~~~--------------  176 (456)
                      ||+|.+..              ..|++|++++|..        .     .      ++-++|++..              
T Consensus       298 DEvDKi~~~~~~i~~~RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnILFiasGAF~~Ldk~I~rR~~  377 (564)
T KOG0745|consen  298 DEVDKITKKAESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNILFIASGAFVGLDKIISRRLD  377 (564)
T ss_pred             ehhhhhcccCccccccccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceEEEecccccchHHHHHHhhc
Confidence            99999963              3688999999731        0     0      1112333210              


Q ss_pred             --------c----------c--------------------------cccccccCCce-EEEecCCCHHHHHHHHHH----
Q psy12150        177 --------V----------S--------------------------CIIQPLTSRCS-KFRFKPLAENTMLTRLQY----  207 (456)
Q Consensus       177 --------~----------~--------------------------kl~~~l~~r~~-~i~f~~~~~~el~~~l~~----  207 (456)
                              +          .                          -++|.+..|+- .+.|.+++++++..+|..    
T Consensus       378 d~slGFg~~s~~~vr~~~~~~s~~~~~~~~~~~lL~~~~~~DLisfGmIPEfVGRfPVlVplh~L~~~~Lv~VLtEPkna  457 (564)
T KOG0745|consen  378 DKSLGFGAPSSKGVRANMATKSGVENDAEKRDELLEKVESGDLISFGMIPEFVGRFPVLVPLHSLDEDQLVRVLTEPKNA  457 (564)
T ss_pred             chhcccCCCCCccchhhcccccCcchhHHHHHHHHhhccccchhhhcCcHHHhcccceEeeccccCHHHHHHHHhcchhh
Confidence                    0          0                          01344555554 688999999998887742    


Q ss_pred             -------HHHHcC--CCCCHHHHHHHHHHc---CCCHHHHHHHHHHHHHhh
Q psy12150        208 -------ICEQES--VMCDFKALETLVETS---GGDMRRAITCLQSCARLK  246 (456)
Q Consensus       208 -------~~~~~~--~~i~~~~l~~L~~~s---~gdlr~~~~~L~~~~~~~  246 (456)
                             .+...+  ..+++++++.|++.+   +.-.|-+...++++..-+
T Consensus       458 L~~Qyk~lf~~~nV~L~fTe~Al~~IAq~Al~r~TGARgLRsIlE~~Llea  508 (564)
T KOG0745|consen  458 LGKQYKKLFGMDNVELHFTEKALEAIAQLALKRKTGARGLRSILESLLLEA  508 (564)
T ss_pred             HHHHHHHHhccCCeeEEecHHHHHHHHHHHHhhccchHHHHHHHHHHHhhh
Confidence                   122233  347899999999875   445777888888876644

>PRK06526 transposase; Provisional

Probab=98.42  E-value=3.5e-07  Score=86.23  Aligned_cols=122  Identities=17%  Similarity=0.191  Sum_probs=65.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCC
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA  146 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~  146 (456)
                      .+++|+||||+|||+++.+++.++......  +...+..      .+.+.+.........  ...-.......+|||||+
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~~~g~~--v~f~t~~------~l~~~l~~~~~~~~~--~~~l~~l~~~dlLIIDD~  168 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRACQAGHR--VLFATAA------QWVARLAAAHHAGRL--QAELVKLGRYPLLIVDEV  168 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHHHCCCc--hhhhhHH------HHHHHHHHHHhcCcH--HHHHHHhccCCEEEEccc
Confidence            469999999999999999999887543332  2222121      111111110000000  000000013459999999


Q ss_pred             CCcc--HHHHHHHHHHHHhccCcceEEEEecCccc--------------ccccccCCceEEEecCCCH
Q psy12150        147 DSMT--HAAQAALRRTMEKETKSTRFCLICNYVSC--------------IIQPLTSRCSKFRFKPLAE  198 (456)
Q Consensus       147 d~l~--~~~~~~Ll~~le~~~~~~~lIl~~~~~~k--------------l~~~l~~r~~~i~f~~~~~  198 (456)
                      +.+.  ....+.|..+++.......+|+++|.+..              +.+.|...+..+.|...+.
T Consensus       169 g~~~~~~~~~~~L~~li~~r~~~~s~IitSn~~~~~w~~~~~d~~~a~ai~dRl~~~~~~i~~~g~s~  236 (254)
T PRK06526        169 GYIPFEPEAANLFFQLVSSRYERASLIVTSNKPFGRWGEVFGDDVVAAAMIDRLVHHAEVISLKGDSY  236 (254)
T ss_pred             ccCCCCHHHHHHHHHHHHHHHhcCCEEEEcCCCHHHHHHHcCChHHHHHHHHHHhcCceEEeecCCCc
Confidence            9774  55566677777643333446777775311              2234445566777766543

>PF14516 AAA_35: AAA-like domain

Probab=98.41  E-value=0.00013  Score=71.73  Aligned_cols=197  Identities=17%  Similarity=0.152  Sum_probs=113.8

Q ss_pred             cccHHHHHHHHHHHhc-CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC-----cChHHHHHHH-HHH
Q psy12150         48 IEQQEVVSVLKKCLSG-ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD-----RGIQVIRDKV-KTF  120 (456)
Q Consensus        48 vg~~~~~~~l~~~l~~-~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~-----~~~~~i~~~l-~~~  120 (456)
                      +.++.+-+.+.+.+.. |.  .+.|+||..+|||+++.++.+.+....+  ..+.+|....     ...+.....+ ..+
T Consensus        14 i~R~~~e~~~~~~i~~~G~--~~~I~apRq~GKTSll~~l~~~l~~~~~--~~v~id~~~~~~~~~~~~~~f~~~~~~~i   89 (331)
T PF14516_consen   14 IERPPAEQECYQEIVQPGS--YIRIKAPRQMGKTSLLLRLLERLQQQGY--RCVYIDLQQLGSAIFSDLEQFLRWFCEEI   89 (331)
T ss_pred             cCchHHHHHHHHHHhcCCC--EEEEECcccCCHHHHHHHHHHHHHHCCC--EEEEEEeecCCCcccCCHHHHHHHHHHHH
Confidence            4455555666666654 43  4899999999999999999988866544  3444444431     1122111111 111


Q ss_pred             HHhhcc----------CCCCCC-----------CCCCCcEEEEEcCCCCccH------HHHHHHHHHHHhc-----cCcc
Q psy12150        121 AQQTAS----------GFNQDG-----------KPCPPFKIVILDEADSMTH------AAQAALRRTMEKE-----TKST  168 (456)
Q Consensus       121 ~~~~~~----------~~~~~~-----------~~~~~~~iviIDE~d~l~~------~~~~~Ll~~le~~-----~~~~  168 (456)
                      ......          ......           ......-|++|||+|.+..      +....|+.+-++.     ....
T Consensus        90 ~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~~~L  169 (331)
T PF14516_consen   90 SRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIWQKL  169 (331)
T ss_pred             HHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcccceE
Confidence            100000          000000           0002234999999998875      1233334333322     2345


Q ss_pred             eEEEEecCccccc-----ccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy12150        169 RFCLICNYVSCII-----QPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCA  243 (456)
Q Consensus       169 ~lIl~~~~~~kl~-----~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~  243 (456)
                      ++|++......+.     .++ +-+..+++++.+.+|+...++.    .+..++++.++.|...++|.+--+...+..++
T Consensus       170 ~li~~~~t~~~~~~~~~~SPF-NIg~~i~L~~Ft~~ev~~L~~~----~~~~~~~~~~~~l~~~tgGhP~Lv~~~~~~l~  244 (331)
T PF14516_consen  170 RLILAGSTEDYIILDINQSPF-NIGQPIELPDFTPEEVQELAQR----YGLEFSQEQLEQLMDWTGGHPYLVQKACYLLV  244 (331)
T ss_pred             EEEEecCcccccccCCCCCCc-ccccceeCCCCCHHHHHHHHHh----hhccCCHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            5666654221111     122 4455889999999998776554    46778899999999999999987777776665


Q ss_pred             HhhCCCCCCHHHHH
Q psy12150        244 RLKGGEGIVNEDVL  257 (456)
Q Consensus       244 ~~~~~~~It~~~v~  257 (456)
                      .    +.++.+++-
T Consensus       245 ~----~~~~~~~l~  254 (331)
T PF14516_consen  245 E----EQITLEQLL  254 (331)
T ss_pred             H----ccCcHHHHH
Confidence            4    356655544

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.40  E-value=1.4e-05  Score=75.86  Aligned_cols=107  Identities=22%  Similarity=0.230  Sum_probs=73.3

Q ss_pred             cEEEEEcCCCCccH------------HHHHHHHHHHHhcc----------CcceEEEEec----CcccccccccCCce-E
Q psy12150        138 FKIVILDEADSMTH------------AAQAALRRTMEKET----------KSTRFCLICN----YVSCIIQPLTSRCS-K  190 (456)
Q Consensus       138 ~~iviIDE~d~l~~------------~~~~~Ll~~le~~~----------~~~~lIl~~~----~~~kl~~~l~~r~~-~  190 (456)
                      ..+|||||+|.+..            ..|..|+.++|...          ++..||.++.    .++.+.|.|..|+- +
T Consensus       251 ~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIasGAFh~sKPSDLiPELQGRfPIR  330 (444)
T COG1220         251 NGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIASGAFHVAKPSDLIPELQGRFPIR  330 (444)
T ss_pred             cCeEEEehhhHHHhcCCCCCCCcchhhhcccccccccCceeeccccccccceEEEEecCceecCChhhcChhhcCCCceE
Confidence            35999999998843            24666777776422          2233443332    46789999999987 8


Q ss_pred             EEecCCCHHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHc---C-----CCHHHHHHHHHHHHH
Q psy12150        191 FRFKPLAENTMLTRLQY-----------ICEQESV--MCDFKALETLVETS---G-----GDMRRAITCLQSCAR  244 (456)
Q Consensus       191 i~f~~~~~~el~~~l~~-----------~~~~~~~--~i~~~~l~~L~~~s---~-----gdlr~~~~~L~~~~~  244 (456)
                      +++.+++.+++.++|..           .++-+|+  .|++++++.|++.+   +     =-.|++-..++++..
T Consensus       331 VEL~~Lt~~Df~rILtep~~sLikQY~aLlkTE~v~l~FtddaI~~iAeiA~~vN~~~ENIGARRLhTvlErlLe  405 (444)
T COG1220         331 VELDALTKEDFERILTEPKASLIKQYKALLKTEGVELEFTDDAIKRIAEIAYQVNEKTENIGARRLHTVLERLLE  405 (444)
T ss_pred             EEcccCCHHHHHHHHcCcchHHHHHHHHHHhhcCeeEEecHHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHH
Confidence            99999999998887742           2233554  57899999998764   1     125666666666544

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.39  E-value=1.7e-05  Score=88.95  Aligned_cols=188  Identities=12%  Similarity=0.125  Sum_probs=108.8

Q ss_pred             CCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHH
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~  120 (456)
                      |..-..++-++...+.+...   ...+-++|+||+|+||||++..++....    ....+.++..+.....-....+..+
T Consensus        10 p~~~~~~~~R~rl~~~l~~~---~~~~~~~v~apaG~GKTtl~~~~~~~~~----~~~w~~l~~~d~~~~~f~~~l~~~l   82 (903)
T PRK04841         10 PVRLHNTVVRERLLAKLSGA---NNYRLVLVTSPAGYGKTTLISQWAAGKN----NLGWYSLDESDNQPERFASYLIAAL   82 (903)
T ss_pred             CCCccccCcchHHHHHHhcc---cCCCeEEEECCCCCCHHHHHHHHHHhCC----CeEEEecCcccCCHHHHHHHHHHHH
Confidence            44455667777776666432   2233499999999999999999886532    2234445444422211111111111


Q ss_pred             HHhhccCCC-------CCCC---------------CCCCcEEEEEcCCCCccHHHHH-HHHHHHHhccCcceEEEEecCc
Q psy12150        121 AQQTASGFN-------QDGK---------------PCPPFKIVILDEADSMTHAAQA-ALRRTMEKETKSTRFCLICNYV  177 (456)
Q Consensus       121 ~~~~~~~~~-------~~~~---------------~~~~~~iviIDE~d~l~~~~~~-~Ll~~le~~~~~~~lIl~~~~~  177 (456)
                      .........       ..+.               .....-+|||||++.+...... .+...+...++...+|+++...
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~  162 (903)
T PRK04841         83 QQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNL  162 (903)
T ss_pred             HHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCC
Confidence            100000000       0000               0013348999999999755544 5555566666777777776542


Q ss_pred             ccc-cccccCCceEEEec----CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Q psy12150        178 SCI-IQPLTSRCSKFRFK----PLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITC  238 (456)
Q Consensus       178 ~kl-~~~l~~r~~~i~f~----~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~  238 (456)
                      ..+ ...+.-+...+++.    +++.+|...++...   .|..++++.++.|.+.|+|.+-.+.-.
T Consensus       163 ~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~---~~~~~~~~~~~~l~~~t~Gwp~~l~l~  225 (903)
T PRK04841        163 PPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQR---LSSPIEAAESSRLCDDVEGWATALQLI  225 (903)
T ss_pred             CCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhc---cCCCCCHHHHHHHHHHhCChHHHHHHH
Confidence            222 12222233334444    88999999988754   356789999999999999998665433

>PRK04132 replication factor C small subunit; Provisional

Probab=98.36  E-value=2.4e-07  Score=99.85  Aligned_cols=51  Identities=49%  Similarity=0.997  Sum_probs=48.3

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHH
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTST   82 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~   82 (456)
                      +.||.++|||.+|+|++|++.+++.|+.+++.++.+|++|+||||+||+.+
T Consensus         6 ~~~~~~k~RP~~f~dIiGqe~i~~~Lk~~i~~~~i~h~l~~g~~g~~~cl~   56 (846)
T PRK04132          6 EKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKCLT   56 (846)
T ss_pred             cccHHHhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEECCCCCCcccc
Confidence            469999999999999999999999999999999999988999999999754

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.35  E-value=9.2e-06  Score=69.22  Aligned_cols=124  Identities=15%  Similarity=0.308  Sum_probs=68.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccc-----------------cceEEeeCCC-----------------CcChHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYR-----------------ERILELNASD-----------------DRGIQVIR  114 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~-----------------~~~~e~n~~~-----------------~~~~~~i~  114 (456)
                      +.++|+||+||||++..+++.+....+.                 +.++.+....                 .-..+.+.
T Consensus         8 i~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~V~v~~le   87 (179)
T COG1618           8 IFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYGVNVEGLE   87 (179)
T ss_pred             EEEeCCCCccHHHHHHHHHHHHHhcCceeeeEEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEEeeHHHHH
Confidence            8999999999999999999888643221                 1222222111                 01122333


Q ss_pred             HHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCcc---HHHHHHHHHHHHhccCcceEEEEec--CcccccccccCCce
Q psy12150        115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT---HAAQAALRRTMEKETKSTRFCLICN--YVSCIIQPLTSRCS  189 (456)
Q Consensus       115 ~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~---~~~~~~Ll~~le~~~~~~~lIl~~~--~~~kl~~~l~~r~~  189 (456)
                      +......+.+..          ..+++||||+..|-   +...+.+-+.|....+   +|++-.  .++-+.+.++++..
T Consensus        88 ~i~~~al~rA~~----------~aDvIIIDEIGpMElks~~f~~~ve~vl~~~kp---liatlHrrsr~P~v~~ik~~~~  154 (179)
T COG1618          88 EIAIPALRRALE----------EADVIIIDEIGPMELKSKKFREAVEEVLKSGKP---LIATLHRRSRHPLVQRIKKLGG  154 (179)
T ss_pred             HHhHHHHHHHhh----------cCCEEEEecccchhhccHHHHHHHHHHhcCCCc---EEEEEecccCChHHHHhhhcCC
Confidence            232222222211          22499999998873   3344555556654332   444433  34556677888877


Q ss_pred             EEE-ecCCCHHHHHHHH
Q psy12150        190 KFR-FKPLAENTMLTRL  205 (456)
Q Consensus       190 ~i~-f~~~~~~el~~~l  205 (456)
                      .+- +.+-+.+.+...+
T Consensus       155 v~v~lt~~NR~~i~~~I  171 (179)
T COG1618         155 VYVFLTPENRNRILNEI  171 (179)
T ss_pred             EEEEEccchhhHHHHHH
Confidence            666 4554555443333

>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=98.32  E-value=1.4e-06  Score=83.10  Aligned_cols=148  Identities=18%  Similarity=0.231  Sum_probs=85.3

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCC-CCCCC
Q psy12150         57 LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ-DGKPC  135 (456)
Q Consensus        57 l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~-~~~~~  135 (456)
                      +..++..++  ++||.||+|||||.+++.+.+.+..+.+  ....++.+.......++..++.....   ..+. .+.+.
T Consensus        26 l~~l~~~~~--pvLl~G~~GtGKT~li~~~l~~l~~~~~--~~~~~~~s~~Tts~~~q~~ie~~l~k---~~~~~~gP~~   98 (272)
T PF12775_consen   26 LDLLLSNGR--PVLLVGPSGTGKTSLIQNFLSSLDSDKY--LVITINFSAQTTSNQLQKIIESKLEK---RRGRVYGPPG   98 (272)
T ss_dssp             HHHHHHCTE--EEEEESSTTSSHHHHHHHHHHCSTTCCE--EEEEEES-TTHHHHHHHHCCCTTECE---CTTEEEEEES
T ss_pred             HHHHHHcCC--cEEEECCCCCchhHHHHhhhccCCcccc--ceeEeeccCCCCHHHHHHHHhhcEEc---CCCCCCCCCC
Confidence            445556543  6999999999999999998887654332  24456666544444443333221110   0000 01122


Q ss_pred             CCcEEEEEcCCCCccHH------HHHHHHHHHHhcc------------CcceEEEEecCc---ccccccccCCceEEEec
Q psy12150        136 PPFKIVILDEADSMTHA------AQAALRRTMEKET------------KSTRFCLICNYV---SCIIQPLTSRCSKFRFK  194 (456)
Q Consensus       136 ~~~~iviIDE~d~l~~~------~~~~Ll~~le~~~------------~~~~lIl~~~~~---~kl~~~l~~r~~~i~f~  194 (456)
                      ..+-|++|||+..-..+      ..+.|+++++...            ..+.+|.+++..   ..+.+.+.+.+..+.+.
T Consensus        99 ~k~lv~fiDDlN~p~~d~ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is~R~~r~f~i~~~~  178 (272)
T PF12775_consen   99 GKKLVLFIDDLNMPQPDKYGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLRHFNILNIP  178 (272)
T ss_dssp             SSEEEEEEETTT-S---TTS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHTTEEEEE--
T ss_pred             CcEEEEEecccCCCCCCCCCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhhheEEEEec
Confidence            34458999999766543      2466677776421            235566665542   34677888899999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q psy12150        195 PLAENTMLTRLQYICEQ  211 (456)
Q Consensus       195 ~~~~~el~~~l~~~~~~  211 (456)
                      .|+.+.+..+...++..
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            99999999888877763

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.32  E-value=3.2e-06  Score=82.58  Aligned_cols=112  Identities=19%  Similarity=0.308  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHH-H---HHHH-hh
Q psy12150         52 EVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV-K---TFAQ-QT  124 (456)
Q Consensus        52 ~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l-~---~~~~-~~  124 (456)
                      .++...+.++++..  ..+++|+||+|+|||+++.++++++.....  .++.++..+.  ...+.... .   .... ..
T Consensus       167 ~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~~~g~--~V~y~t~~~l--~~~l~~~~~~~~~~~~~~~~  242 (329)
T PRK06835        167 KILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKELLDRGK--SVIYRTADEL--IEILREIRFNNDKELEEVYD  242 (329)
T ss_pred             HHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHCCC--eEEEEEHHHH--HHHHHHHHhccchhHHHHHH
Confidence            34455556665321  245999999999999999999999865433  4555555331  11111100 0   0000 00


Q ss_pred             ccCCCCCCCCCCCcEEEEEcCCCCc--cHHHHHHHHHHHHhcc-CcceEEEEecC
Q psy12150        125 ASGFNQDGKPCPPFKIVILDEADSM--THAAQAALRRTMEKET-KSTRFCLICNY  176 (456)
Q Consensus       125 ~~~~~~~~~~~~~~~iviIDE~d~l--~~~~~~~Ll~~le~~~-~~~~lIl~~~~  176 (456)
                      ..         .+..+|||||++..  +....+.|..+++... ....+|+++|.
T Consensus       243 ~l---------~~~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        243 LL---------INCDLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             Hh---------ccCCEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            00         13359999999654  4555667777776532 22346667774

>KOG0736|consensus

Probab=98.30  E-value=5.7e-06  Score=86.02  Aligned_cols=169  Identities=18%  Similarity=0.222  Sum_probs=103.6

Q ss_pred             ccccHHHHHHHHHHHhcC--------C-CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC--hHHHHH
Q psy12150         47 VIEQQEVVSVLKKCLSGA--------D-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG--IQVIRD  115 (456)
Q Consensus        47 ivg~~~~~~~l~~~l~~~--------~-~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~--~~~i~~  115 (456)
                      ..+++..+..+...+.-.        . .+.+|++|+||||||++++++++.++-     ++++++|.+...  ......
T Consensus       403 ~~~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~-----h~~evdc~el~~~s~~~~et  477 (953)
T KOG0736|consen  403 PPGLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASELGL-----HLLEVDCYELVAESASHTET  477 (953)
T ss_pred             CccchHHHHHHHHHhCcccCcchhccccceEEEEeCCCCCChHHHHHHHHHHhCC-----ceEeccHHHHhhcccchhHH
Confidence            345566665555555311        1 223999999999999999999999855     566776654211  111222


Q ss_pred             HHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------HHHHHHHHHH-----hccCcceEEEEecCcccccc
Q psy12150        116 KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------AQAALRRTME-----KETKSTRFCLICNYVSCIIQ  182 (456)
Q Consensus       116 ~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------~~~~Ll~~le-----~~~~~~~lIl~~~~~~kl~~  182 (456)
                      ++......+..     ..|+    +|++-+.|-+.-+        .+..+...+.     ...+.+++|.+++...++.+
T Consensus       478 kl~~~f~~a~~-----~~pa----vifl~~~dvl~id~dgged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~~~lp~  548 (953)
T KOG0736|consen  478 KLQAIFSRARR-----CSPA----VLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTSSIEDLPA  548 (953)
T ss_pred             HHHHHHHHHhh-----cCce----EEEEeccceeeecCCCchhHHHHHHHHHHHhcccccCCCCceEEEEeccccccCCH
Confidence            33333322221     1233    8888888776422        1222222222     13355777777788888888


Q ss_pred             cccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q psy12150        183 PLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG  230 (456)
Q Consensus       183 ~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g  230 (456)
                      .+++-+. .+.++.+++++..+|++.......+. .+.-+..++..+.|
T Consensus       549 ~i~~~f~~ei~~~~lse~qRl~iLq~y~~~~~~n-~~v~~k~~a~~t~g  596 (953)
T KOG0736|consen  549 DIQSLFLHEIEVPALSEEQRLEILQWYLNHLPLN-QDVNLKQLARKTSG  596 (953)
T ss_pred             HHHHhhhhhccCCCCCHHHHHHHHHHHHhccccc-hHHHHHHHHHhcCC
Confidence            8877765 89999999999999999988754422 23334445665554

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

Probab=98.27  E-value=8.3e-07  Score=79.52  Aligned_cols=48  Identities=25%  Similarity=0.387  Sum_probs=33.3

Q ss_pred             cccccHHHHHHHHHHHh---cCCCCeEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         46 DVIEQQEVVSVLKKCLS---GADLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~---~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      .++|++..++.+...+.   .+..+.++|+|++|+|||++++.+.+.+...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            37899999999999983   2333449999999999999999988877543

>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=98.26  E-value=2.4e-05  Score=72.58  Aligned_cols=137  Identities=18%  Similarity=0.166  Sum_probs=87.5

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCC
Q psy12150         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKP  134 (456)
Q Consensus        55 ~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~  134 (456)
                      ..+..++....  .-.++||+|||||.+++.+++.++.     .++.+|+++..+...+.+.+..+.+...         
T Consensus        23 ~~l~~al~~~~--~~~~~GpagtGKtetik~La~~lG~-----~~~vfnc~~~~~~~~l~ril~G~~~~Ga---------   86 (231)
T PF12774_consen   23 LTLTQALSLNL--GGALSGPAGTGKTETIKDLARALGR-----FVVVFNCSEQMDYQSLSRILKGLAQSGA---------   86 (231)
T ss_dssp             HHHHHHHCTTT--EEEEESSTTSSHHHHHHHHHHCTT-------EEEEETTSSS-HHHHHHHHHHHHHHT----------
T ss_pred             HHHHHHhccCC--CCCCcCCCCCCchhHHHHHHHHhCC-----eEEEecccccccHHHHHHHHHHHhhcCc---------
Confidence            44555554332  2578999999999999999998755     6888999999998888888888776642         


Q ss_pred             CCCcEEEEEcCCCCccHHHHHHHHHHH-------Hhcc-------------CcceEEEEecC----cccccccccCCceE
Q psy12150        135 CPPFKIVILDEADSMTHAAQAALRRTM-------EKET-------------KSTRFCLICNY----VSCIIQPLTSRCSK  190 (456)
Q Consensus       135 ~~~~~iviIDE~d~l~~~~~~~Ll~~l-------e~~~-------------~~~~lIl~~~~----~~kl~~~l~~r~~~  190 (456)
                           -+++||++.|..+....+-+.+       ....             +++.+.++.|.    +..+++.++.-+..
T Consensus        87 -----W~cfdefnrl~~~vLS~i~~~i~~i~~al~~~~~~~~~~g~~i~l~~~~~iFiT~np~y~gr~~LP~nLk~lFRp  161 (231)
T PF12774_consen   87 -----WLCFDEFNRLSEEVLSVISQQIQSIQDALRAKQKSFTLEGQEIKLNPNCGIFITMNPGYAGRSELPENLKALFRP  161 (231)
T ss_dssp             -----EEEEETCCCSSHHHHHHHHHHHHHHHHHHHCTSSEEEETTCEEE--TT-EEEEEE-B-CCCC--S-HHHCTTEEE
T ss_pred             -----hhhhhhhhhhhHHHHHHHHHHHHHHHHhhcccccccccCCCEEEEccceeEEEeeccccCCcccCCHhHHHHhhe
Confidence                 6899999999987655443332       2111             22333334442    35678888999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCC
Q psy12150        191 FRFKPLAENTMLTRLQYICEQESVM  215 (456)
Q Consensus       191 i~f~~~~~~el~~~l~~~~~~~~~~  215 (456)
                      +.+..|+...+.+.+   +...|..
T Consensus       162 vam~~PD~~~I~ei~---L~s~GF~  183 (231)
T PF12774_consen  162 VAMMVPDLSLIAEIL---LLSQGFK  183 (231)
T ss_dssp             EE--S--HHHHHHHH---HHCCCTS
T ss_pred             eEEeCCCHHHHHHHH---HHHcCch
Confidence            999888877665543   3445554

>PRK06921 hypothetical protein; Provisional

Probab=98.23  E-value=1e-05  Score=76.89  Aligned_cols=99  Identities=14%  Similarity=0.218  Sum_probs=55.4

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHhcCC-ccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEc
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQLFGD-MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILD  144 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~l~~~-~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviID  144 (456)
                      ..+++|+|++|+|||+++.++++++... ..  .++.+...+  ....+......+.......        ....+||||
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~--~v~y~~~~~--l~~~l~~~~~~~~~~~~~~--------~~~dlLiID  184 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGV--PVLYFPFVE--GFGDLKDDFDLLEAKLNRM--------KKVEVLFID  184 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCc--eEEEEEHHH--HHHHHHHHHHHHHHHHHHh--------cCCCEEEEe
Confidence            3459999999999999999999988653 22  455555432  1112221111111110000        133499999


Q ss_pred             CCCC-------ccHHHHHHHHHHHHhccC-cceEEEEecC
Q psy12150        145 EADS-------MTHAAQAALRRTMEKETK-STRFCLICNY  176 (456)
Q Consensus       145 E~d~-------l~~~~~~~Ll~~le~~~~-~~~lIl~~~~  176 (456)
                      |++.       .+.-..+.|..+++.... ...+|+++|.
T Consensus       185 Dl~~~~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~  224 (266)
T PRK06921        185 DLFKPVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSEL  224 (266)
T ss_pred             ccccccCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            9943       334345566666654321 2335667774

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.22  E-value=4.6e-06  Score=80.82  Aligned_cols=57  Identities=16%  Similarity=0.214  Sum_probs=39.5

Q ss_pred             cCCCCccccccc----HHHHHHHHHHHhcC----CCCeEEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         39 YRPKTIDDVIEQ----QEVVSVLKKCLSGA----DLPHFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        39 y~P~~~~~ivg~----~~~~~~l~~~l~~~----~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      +...+|+++...    ..+......++.+.    ...+++|+|++|+|||+++.++++++.....
T Consensus       121 ~~~atf~~~~~~~~~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~  185 (306)
T PRK08939        121 LLQASLADIDLDDRDRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGV  185 (306)
T ss_pred             HhcCcHHHhcCCChHHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence            335677777643    33444556666532    2345999999999999999999999865444

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.18  E-value=2.6e-06  Score=75.95  Aligned_cols=93  Identities=24%  Similarity=0.375  Sum_probs=51.9

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC-------cChHHHHHHHHHHHHhhccCCCCCCCCCCCcE
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD-------RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFK  139 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~-------~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~  139 (456)
                      .+++|+||+|+|||+++.++++++.....  .+..++..+.       ...+...+.+..+.               ...
T Consensus        48 ~~l~l~G~~G~GKThLa~ai~~~~~~~g~--~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~---------------~~d  110 (178)
T PF01695_consen   48 ENLILYGPPGTGKTHLAVAIANEAIRKGY--SVLFITASDLLDELKQSRSDGSYEELLKRLK---------------RVD  110 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT----EEEEEHHHHHHHHHCCHCCTTHCHHHHHHH---------------TSS
T ss_pred             eEEEEEhhHhHHHHHHHHHHHHHhccCCc--ceeEeecCceeccccccccccchhhhcCccc---------------ccc
Confidence            46999999999999999999988765433  3444433220       00001111122221               234


Q ss_pred             EEEEcCCCCcc--HHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        140 IVILDEADSMT--HAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       140 iviIDE~d~l~--~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      ++||||+....  ....+.|.++++........|+++|.
T Consensus       111 lLilDDlG~~~~~~~~~~~l~~ii~~R~~~~~tIiTSN~  149 (178)
T PF01695_consen  111 LLILDDLGYEPLSEWEAELLFEIIDERYERKPTIITSNL  149 (178)
T ss_dssp             CEEEETCTSS---HHHHHCTHHHHHHHHHT-EEEEEESS
T ss_pred             EecccccceeeecccccccchhhhhHhhcccCeEeeCCC
Confidence            99999997654  33445556666543222345667774

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.

>KOG0482|consensus

Probab=98.17  E-value=0.0001  Score=73.48  Aligned_cols=221  Identities=17%  Similarity=0.184  Sum_probs=125.9

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCC---------C---CeEEEECCCCCcHHHHHHHHHHHhcCCccccceE
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGAD---------L---PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERIL  100 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~---------~---~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~  100 (456)
                      -++-|+....---+|.|++.+++.|.-.+-+|.         .   -|+++.|.||+.|+.+.+.+.+-.-.    ..+.
T Consensus       330 ~d~yekLa~SiAPEIyGheDVKKaLLLlLVGgvd~~~~dGMKIRGdINicLmGDPGVAKSQLLkyi~rlapR----gvYT  405 (721)
T KOG0482|consen  330 GDFYEKLAASIAPEIYGHEDVKKALLLLLVGGVDKSPGDGMKIRGDINICLMGDPGVAKSQLLKYISRLAPR----GVYT  405 (721)
T ss_pred             ccHHHHHHHhhchhhccchHHHHHHHHHhhCCCCCCCCCCceeecceeEEecCCCchhHHHHHHHHHhcCcc----ccee
Confidence            344444333223378999999988887774432         1   14999999999999999999885322    1222


Q ss_pred             EeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-------------Cc
Q psy12150        101 ELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KS  167 (456)
Q Consensus       101 e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-------------~~  167 (456)
                      .--+++  +++.-...+++-... ...........++..|.+|||+|.|.....-++.+.||.-.             ..
T Consensus       406 TGrGSS--GVGLTAAVmkDpvTg-EM~LEGGALVLAD~GICCIDEfDKM~e~DRtAIHEVMEQQTISIaKAGI~TtLNAR  482 (721)
T KOG0482|consen  406 TGRGSS--GVGLTAAVMKDPVTG-EMVLEGGALVLADGGICCIDEFDKMDESDRTAIHEVMEQQTISIAKAGINTTLNAR  482 (721)
T ss_pred             cCCCCC--ccccchhhhcCCCCC-eeEeccceEEEccCceEeehhhhhhhhhhhHHHHHHHHhhhhhhhhhccccchhhh
Confidence            222222  222111111110000 00000000011455699999999998877777777776421             23


Q ss_pred             ceEEEEecCcc-------------cccccccCCce-------------------------------EEEecCCCHHHHHH
Q psy12150        168 TRFCLICNYVS-------------CIIQPLTSRCS-------------------------------KFRFKPLAENTMLT  203 (456)
Q Consensus       168 ~~lIl~~~~~~-------------kl~~~l~~r~~-------------------------------~i~f~~~~~~el~~  203 (456)
                      +.++.++|+.+             .+..+|.||+.                               ...|.|++.+-++.
T Consensus       483 ~sILaAANPayGRYnprrs~e~NI~LPaALLSRFDll~Li~D~pdrd~D~~LA~HiTyVH~H~~qp~~~fepl~~~~mR~  562 (721)
T KOG0482|consen  483 TSILAAANPAYGRYNPRRSPEQNINLPAALLSRFDLLWLIQDRPDRDNDLRLAQHITYVHQHEEQPPLDFEPLDPNLMRR  562 (721)
T ss_pred             HHhhhhcCccccccCcccChhHhcCCcHHHHHhhhhhhhhccCCcccchHHHHHHhHhhhccCCCCCccCCCCCHHHHHH
Confidence            44555555311             23445555532                               36777888888888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH--------------cCCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        204 RLQYICEQESVMCDFKALETLVET--------------SGGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       204 ~l~~~~~~~~~~i~~~~l~~L~~~--------------s~gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      ++. .|+...-.++++..+.|...              +--.+|.++..|....+.+   -...+..+||.+++.
T Consensus       563 yI~-~ak~~~P~vp~~l~dyi~~AYv~~Rrea~~~~~~t~ttpRtLL~IlRls~AlarLRls~~V~~~DV~EALR  636 (721)
T KOG0482|consen  563 YIS-LAKRKNPVVPEALADYITGAYVELRREARSSKDFTYTTPRTLLGILRLSTALARLRLSDSVEEDDVNEALR  636 (721)
T ss_pred             HHH-HHhhcCCCCCHHHHHHHHHHHHHHHHHhhccCCCcccCHHHHHHHHHHHHHHHHhhhccccchhhHHHHHH
Confidence            876 45555666777777776632              1235777777776544443   355677777776653

>PHA00729 NTP-binding motif containing protein

Probab=98.13  E-value=1.2e-05  Score=73.57  Aligned_cols=126  Identities=12%  Similarity=0.121  Sum_probs=70.8

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccc--cceEEeeCC---CCcChHHHHHHHHHHHHhhccCCCCC
Q psy12150         57 LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYR--ERILELNAS---DDRGIQVIRDKVKTFAQQTASGFNQD  131 (456)
Q Consensus        57 l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~--~~~~e~n~~---~~~~~~~i~~~l~~~~~~~~~~~~~~  131 (456)
                      +.+.+..+.+.+++|+|+||+|||++|.++++.+......  ......+..   .....+.+.+.+.......       
T Consensus         8 ~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l~~~l~~l~~~~~~~d~~~~~~fid~~~Ll~~L~~a~~~~-------   80 (226)
T PHA00729          8 IVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDVFWKLNNLSTKDDAWQYVQNSYFFELPDALEKIQDAIDND-------   80 (226)
T ss_pred             HHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHHHhhcccccchhhHHhcCCcEEEEEHHHHHHHHHHHHhcC-------
Confidence            4455566667679999999999999999999987411100  000000000   0112233334443322110       


Q ss_pred             CCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHH
Q psy12150        132 GKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQY  207 (456)
Q Consensus       132 ~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~  207 (456)
                          ....++||||+..-.....     +   +...  +    .....+.+++++|+..+.|.+++++++...++.
T Consensus        81 ----~~~dlLIIDd~G~~~~~~~-----w---h~~~--~----~~yf~L~~aLrSR~~l~il~~ls~edL~~~Lr~  138 (226)
T PHA00729         81 ----YRIPLIIFDDAGIWLSKYV-----W---YEDY--M----KTFYKIYALIRTRVSAVIFTTPSPEDLAFYLRE  138 (226)
T ss_pred             ----CCCCEEEEeCCchhhcccc-----h---hhhc--c----chHHHHHHHHHhhCcEEEEecCCHHHHHHHHHh
Confidence                0123889999753221100     0   0000  0    122346678889999999999999999888775

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.10  E-value=1.2e-05  Score=75.77  Aligned_cols=102  Identities=18%  Similarity=0.309  Sum_probs=55.9

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHH--HHHhhccCCCCCCCCCCCcEEEE
Q psy12150         65 DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT--FAQQTASGFNQDGKPCPPFKIVI  142 (456)
Q Consensus        65 ~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~--~~~~~~~~~~~~~~~~~~~~ivi  142 (456)
                      +..+++|+||||+|||+++.++++++....+  .+..++..+  ....+......  .........       ....++|
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~--sv~f~~~~e--l~~~Lk~~~~~~~~~~~l~~~l-------~~~dlLI  172 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGI--SVLFITAPD--LLSKLKAAFDEGRLEEKLLREL-------KKVDLLI  172 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCC--eEEEEEHHH--HHHHHHHHHhcCchHHHHHHHh-------hcCCEEE
Confidence            3345999999999999999999999874334  455544433  11112111111  000000000       1445999


Q ss_pred             EcCCCCcc--HHHHHHHHHHHHhccCcceEEEEecCc
Q psy12150        143 LDEADSMT--HAAQAALRRTMEKETKSTRFCLICNYV  177 (456)
Q Consensus       143 IDE~d~l~--~~~~~~Ll~~le~~~~~~~lIl~~~~~  177 (456)
                      |||+....  ....+.+.+.|...-..-..++++|..
T Consensus       173 iDDlG~~~~~~~~~~~~~q~I~~r~~~~~~~~tsN~~  209 (254)
T COG1484         173 IDDIGYEPFSQEEADLLFQLISRRYESRSLIITSNLS  209 (254)
T ss_pred             EecccCccCCHHHHHHHHHHHHHHHhhccceeecCCC
Confidence            99998754  334445555444332222226777753

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=98.08  E-value=2.6e-05  Score=70.77  Aligned_cols=119  Identities=24%  Similarity=0.364  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHH-------HHHHhh
Q psy12150         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVK-------TFAQQT  124 (456)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~-------~~~~~~  124 (456)
                      +..+.+...+.++. ...++.|+||||||++++.+.+.+.....  .++-+.... .....+.+...       .+....
T Consensus         5 ~Q~~a~~~~l~~~~-~~~~l~G~aGtGKT~~l~~~~~~~~~~g~--~v~~~apT~-~Aa~~L~~~~~~~a~Ti~~~l~~~   80 (196)
T PF13604_consen    5 EQREAVRAILTSGD-RVSVLQGPAGTGKTTLLKALAEALEAAGK--RVIGLAPTN-KAAKELREKTGIEAQTIHSFLYRI   80 (196)
T ss_dssp             HHHHHHHHHHHCTC-SEEEEEESTTSTHHHHHHHHHHHHHHTT----EEEEESSH-HHHHHHHHHHTS-EEEHHHHTTEE
T ss_pred             HHHHHHHHHHhcCC-eEEEEEECCCCCHHHHHHHHHHHHHhCCC--eEEEECCcH-HHHHHHHHhhCcchhhHHHHHhcC
Confidence            34455555665442 34889999999999999999887755432  444443332 22222322211       111110


Q ss_pred             ccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        125 ASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       125 ~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      .............+.+|||||+..+.......|++.+..  ....+|++++.
T Consensus        81 ~~~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD~  130 (196)
T PF13604_consen   81 PNGDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGDP  130 (196)
T ss_dssp             CCEECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-T
T ss_pred             CcccccccccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECCc
Confidence            000000000123556999999999999888888888765  34577788764

>PLN03210 Resistant to P

Probab=98.08  E-value=0.00013  Score=83.64  Aligned_cols=187  Identities=10%  Similarity=0.070  Sum_probs=100.5

Q ss_pred             CCcccccccHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC-----C--C-----
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS-----D--D-----  107 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~-----~--~-----  107 (456)
                      ..+++++|.+..++++..++.-..  ..-+-|+|++|+||||+|+++++.+...+ ...+ .++..     .  .     
T Consensus       181 ~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F-~g~v-fv~~~~v~~~~~~~~~~~~  258 (1153)
T PLN03210        181 NDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQF-QSSV-FIDRAFISKSMEIYSSANP  258 (1153)
T ss_pred             cccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcC-CeEE-Eeeccccccchhhcccccc
Confidence            467889999999999998885332  22399999999999999999988875432 1111 11110     0  0     


Q ss_pred             --cC-hHHHH-HHHHHHHHhhccCCC----CCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCccc
Q psy12150        108 --RG-IQVIR-DKVKTFAQQTASGFN----QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSC  179 (456)
Q Consensus       108 --~~-~~~i~-~~l~~~~~~~~~~~~----~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~k  179 (456)
                        .. ...+. +.+............    ...+-...+-+||+||++..  ...+.|....+.......+|+++.+..-
T Consensus       259 ~~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrIIiTTrd~~v  336 (1153)
T PLN03210        259 DDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRIIVITKDKHF  336 (1153)
T ss_pred             cccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEEEEeCcHHH
Confidence              00 00011 111111100000000    00000123448999998753  3344444433322344566667665322


Q ss_pred             ccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHH
Q psy12150        180 IIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCD--FKALETLVETSGGDMRR  234 (456)
Q Consensus       180 l~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~--~~~l~~L~~~s~gdlr~  234 (456)
                      +...  .-...++...++.++..+++...+-+....-+  .+....+++.++|-+-.
T Consensus       337 l~~~--~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLA  391 (1153)
T PLN03210        337 LRAH--GIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLG  391 (1153)
T ss_pred             HHhc--CCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHH
Confidence            2110  11246888899999988888877754332211  23456678888886643

syringae 6; Provisional

>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=98.04  E-value=0.00015  Score=71.90  Aligned_cols=132  Identities=11%  Similarity=0.130  Sum_probs=79.8

Q ss_pred             CcEEEEEcCCCCccHHHHHHHHHHHHhc------cCcceEEEEecCc---ccccccccCC-ceEEEecCCCHHHHHHHHH
Q psy12150        137 PFKIVILDEADSMTHAAQAALRRTMEKE------TKSTRFCLICNYV---SCIIQPLTSR-CSKFRFKPLAENTMLTRLQ  206 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~~~~~Ll~~le~~------~~~~~lIl~~~~~---~kl~~~l~~r-~~~i~f~~~~~~el~~~l~  206 (456)
                      .+.|||||++.+-... .+.+.+.|.+-      ...--+||.|++.   +.+-+++-++ +..+.+...+++..+.++.
T Consensus       148 ~~PVVVIdnF~~k~~~-~~~iy~~laeWAa~Lv~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~  226 (431)
T PF10443_consen  148 RRPVVVIDNFLHKAEE-NDFIYDKLAEWAASLVQNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVL  226 (431)
T ss_pred             cCCEEEEcchhccCcc-cchHHHHHHHHHHHHHhcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHH
Confidence            3569999998765433 22222222211      1112255556543   3455666666 4488999999999999999


Q ss_pred             HHHHHcC-C-------------------CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHH
Q psy12150        207 YICEQES-V-------------------MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKP  266 (456)
Q Consensus       207 ~~~~~~~-~-------------------~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~  266 (456)
                      ..+.... .                   ..+...++..+..-||-+..+-...+++..   | .--.+.|.+++.....+
T Consensus       227 ~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiks---G-e~p~~Av~~iI~qsa~e  302 (431)
T PF10443_consen  227 SQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKS---G-ESPEEAVEEIISQSASE  302 (431)
T ss_pred             HHhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHc---C-CCHHHHHHHHHHHHHHH
Confidence            9887541 1                   135566777888889988888777777654   2 22244555666555444


Q ss_pred             HHHHHHc
Q psy12150        267 WIEKLLK  273 (456)
Q Consensus       267 ~i~~l~~  273 (456)
                      ...-.+.
T Consensus       303 I~k~fl~  309 (431)
T PF10443_consen  303 IRKMFLL  309 (431)
T ss_pred             HHHHHhc
Confidence            4433333

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 [].

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=98.04  E-value=0.00019  Score=71.33  Aligned_cols=95  Identities=18%  Similarity=0.249  Sum_probs=54.1

Q ss_pred             HHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH--hcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCC
Q psy12150         58 KKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ--LFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPC  135 (456)
Q Consensus        58 ~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~--l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~  135 (456)
                      ..+++.+  -|+++.||+|||||+++.++...  +..+            .......+...+..   ......       
T Consensus       203 ~~fve~~--~Nli~lGp~GTGKThla~~l~~~~a~~sG------------~f~T~a~Lf~~L~~---~~lg~v-------  258 (449)
T TIGR02688       203 LPLVEPN--YNLIELGPKGTGKSYIYNNLSPYVILISG------------GTITVAKLFYNIST---RQIGLV-------  258 (449)
T ss_pred             HHHHhcC--CcEEEECCCCCCHHHHHHHHhHHHHHHcC------------CcCcHHHHHHHHHH---HHHhhh-------
Confidence            3455543  46999999999999999998766  2111            11111222111111   111000       


Q ss_pred             CCcEEEEEcCCCCccHH----HHHHHHHHHHhcc---------CcceEEEEecC
Q psy12150        136 PPFKIVILDEADSMTHA----AQAALRRTMEKET---------KSTRFCLICNY  176 (456)
Q Consensus       136 ~~~~iviIDE~d~l~~~----~~~~Ll~~le~~~---------~~~~lIl~~~~  176 (456)
                      ...++|+|||+..+...    ....+..||++..         .+.-++|.+|-
T Consensus       259 ~~~DlLI~DEvgylp~~~~~~~v~imK~yMesg~fsRG~~~~~a~as~vfvGNi  312 (449)
T TIGR02688       259 GRWDVVAFDEVATLKFAKPKELIGILKNYMESGSFTRGDETKSSDASFVFLGNV  312 (449)
T ss_pred             ccCCEEEEEcCCCCcCCchHHHHHHHHHHHHhCceeccceeeeeeeEEEEEccc
Confidence            24569999999986432    3456677787532         23446777663

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.

>PRK09183 transposase/IS protein; Provisional

Probab=98.01  E-value=2.1e-05  Score=74.57  Aligned_cols=96  Identities=20%  Similarity=0.246  Sum_probs=53.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHH-----HHHHHHHhhccCCCCCCCCCCCcEEE
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD-----KVKTFAQQTASGFNQDGKPCPPFKIV  141 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~-----~l~~~~~~~~~~~~~~~~~~~~~~iv  141 (456)
                      .+++|+||+|+|||+++.+++........  .+..++..+..  ..+..     .+........          ....++
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~--~v~~~~~~~l~--~~l~~a~~~~~~~~~~~~~~----------~~~dlL  168 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAVRAGI--KVRFTTAADLL--LQLSTAQRQGRYKTTLQRGV----------MAPRLL  168 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHcCC--eEEEEeHHHHH--HHHHHHHHCCcHHHHHHHHh----------cCCCEE
Confidence            35999999999999999999877543222  34444432210  01100     0111111100          122499


Q ss_pred             EEcCCCCc--cHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        142 ILDEADSM--THAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       142 iIDE~d~l--~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      ||||++..  .....+.|.++++.......+|+++|.
T Consensus       169 iiDdlg~~~~~~~~~~~lf~li~~r~~~~s~iiTsn~  205 (259)
T PRK09183        169 IIDEIGYLPFSQEEANLFFQVIAKRYEKGSMILTSNL  205 (259)
T ss_pred             EEcccccCCCChHHHHHHHHHHHHHHhcCcEEEecCC
Confidence            99999875  344555677777543222346677774

>KOG2543|consensus

Probab=97.96  E-value=0.0044  Score=60.27  Aligned_cols=199  Identities=18%  Similarity=0.118  Sum_probs=108.9

Q ss_pred             ccccccHHHHHHHHHHHhcC--CCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh-----------
Q psy12150         45 DDVIEQQEVVSVLKKCLSGA--DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI-----------  110 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~~--~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~-----------  110 (456)
                      ..+.+++..++.+...+-..  ..|. +.|||..|||||.+++.+.+..+-+     .+.+|+-+....           
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~-----~vw~n~~ecft~~~lle~IL~~~   80 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLE-----NVWLNCVECFTYAILLEKILNKS   80 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCc-----ceeeehHHhccHHHHHHHHHHHh
Confidence            35678899999999888543  3455 7999999999999999999987432     222222221110           


Q ss_pred             --------------HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH---HHHHHHHHHHh-ccCcceEEE
Q psy12150        111 --------------QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA---AQAALRRTMEK-ETKSTRFCL  172 (456)
Q Consensus       111 --------------~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~---~~~~Ll~~le~-~~~~~~lIl  172 (456)
                                    +.+.+.+..+.+.......      ...-++|+|++|.+.+-   -...|.+.-+- ..+.+++++
T Consensus        81 ~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~------d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iil  154 (438)
T KOG2543|consen   81 QLADKDGDKVEGDAENFSDFIYLLVQWPAATNR------DQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIIL  154 (438)
T ss_pred             ccCCCchhhhhhHHHHHHHHHHHHHhhHHhhcc------CceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEE
Confidence                          1122222222221111100      12348999999998642   23333332111 112566666


Q ss_pred             EecCcccccccccCC--ceEEEecCCCHHHHHHHHHHHHH-HcCCCCCHHHHHHHH----HHcCCCHHHHHHHHHHH-HH
Q psy12150        173 ICNYVSCIIQPLTSR--CSKFRFKPLAENTMLTRLQYICE-QESVMCDFKALETLV----ETSGGDMRRAITCLQSC-AR  244 (456)
Q Consensus       173 ~~~~~~kl~~~l~~r--~~~i~f~~~~~~el~~~l~~~~~-~~~~~i~~~~l~~L~----~~s~gdlr~~~~~L~~~-~~  244 (456)
                      +.....+....=.+.  ...++|+.++.+++..++.+--- +....+-..-+..++    ..| +|++.+...+..+ -.
T Consensus       155 s~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p~~r~~~~ya~fl~v~l~vF~~~c-rd~~eL~~~~~~~wpk  233 (438)
T KOG2543|consen  155 SAPSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDNPGKRKLDVYAQFLHVLLQVFYMAC-RDVNELRSLISLAWPK  233 (438)
T ss_pred             eccccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCCccccchHHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHh
Confidence            665444433210111  23799999999999888764221 111111122233333    344 4999888888654 44


Q ss_pred             hh---CCCCCCHHH
Q psy12150        245 LK---GGEGIVNED  255 (456)
Q Consensus       245 ~~---~~~~It~~~  255 (456)
                      |.   .++.|++.+
T Consensus       234 y~epi~~~~i~~~d  247 (438)
T KOG2543|consen  234 YCEPITKGKIDPTD  247 (438)
T ss_pred             hccccccCCCChhH
Confidence            54   245566555

>PHA02774 E1; Provisional

Probab=97.95  E-value=7.9e-05  Score=76.61  Aligned_cols=137  Identities=23%  Similarity=0.337  Sum_probs=82.5

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCC
Q psy12150         52 EVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ  130 (456)
Q Consensus        52 ~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~  130 (456)
                      ..+..|+.++++....+ ++|+||||+|||+++..+++.+.+..    +..+|......       +.            
T Consensus       419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~G~v----i~fvN~~s~Fw-------Lq------------  475 (613)
T PHA02774        419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKV----ISFVNSKSHFW-------LQ------------  475 (613)
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCCCE----EEEEECccccc-------cc------------
Confidence            34567788887543334 99999999999999999999885432    23345422111       00            


Q ss_pred             CCCCCCCcEEEEEcCCCCccHH-HHHHHHHHHHhcc-------------CcceEEEEecCc---ccccccccCCceEEEe
Q psy12150        131 DGKPCPPFKIVILDEADSMTHA-AQAALRRTMEKET-------------KSTRFCLICNYV---SCIIQPLTSRCSKFRF  193 (456)
Q Consensus       131 ~~~~~~~~~iviIDE~d~l~~~-~~~~Ll~~le~~~-------------~~~~lIl~~~~~---~kl~~~l~~r~~~i~f  193 (456)
                         +..+.+++++||+-.-..+ ....|+.+|+..+             ..+.+|+++|-.   ..-.+.|.+|...++|
T Consensus       476 ---pl~d~ki~vlDD~t~~~w~y~d~~Lrn~LdG~~v~lD~Khk~~~q~k~pPlIITSN~d~~~~~~~~yL~sRi~~f~F  552 (613)
T PHA02774        476 ---PLADAKIALLDDATHPCWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKAEDRYKYLHSRITVFEF  552 (613)
T ss_pred             ---hhccCCEEEEecCcchHHHHHHHHHHHHcCCCcceeeecccCcccccCCCEEEecCCCcccchhhHHhhhhEEEEEC
Confidence               1125569999999332222 2335666665431             124567777732   2335668889888777


Q ss_pred             cC-------------CCHHHHHHHHHHHHHHcCC
Q psy12150        194 KP-------------LAENTMLTRLQYICEQESV  214 (456)
Q Consensus       194 ~~-------------~~~~el~~~l~~~~~~~~~  214 (456)
                      +.             ++....+.+.++...+-.+
T Consensus       553 ~n~~P~d~~G~P~f~ltd~~WKsFF~rlw~~LdL  586 (613)
T PHA02774        553 PNPFPLDENGNPVFELTDANWKSFFERLWSQLDL  586 (613)
T ss_pred             CCCCCcCCCCCEeeeeCchhHHHHHHHHHHHcCC
Confidence            53             3445566666666555433

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.95  E-value=9.5e-05  Score=82.47  Aligned_cols=156  Identities=16%  Similarity=0.233  Sum_probs=101.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCC----CCCCcEEEEE
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK----PCPPFKIVIL  143 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~----~~~~~~iviI  143 (456)
                      ++|+.||..+|||+.+..+++..+.     .++.+|-....   ++++.+..+............+    ......-||+
T Consensus       890 P~LiQGpTSSGKTSMI~yla~~tgh-----kfVRINNHEHT---dlqeYiGTyvTdd~G~lsFkEGvLVeAlR~GyWIVL  961 (4600)
T COG5271         890 PLLIQGPTSSGKTSMILYLARETGH-----KFVRINNHEHT---DLQEYIGTYVTDDDGSLSFKEGVLVEALRRGYWIVL  961 (4600)
T ss_pred             cEEEecCCCCCcchHHHHHHHHhCc-----cEEEecCcccc---hHHHHhhceeecCCCceeeehhHHHHHHhcCcEEEe
Confidence            4999999999999999999998765     45555554422   2223333322211100000000    0012237999


Q ss_pred             cCCCCccHHHHHHHHHHHHhc--------------cCcceEEEEecCc-------ccccccccCCceEEEecCCCHHHHH
Q psy12150        144 DEADSMTHAAQAALRRTMEKE--------------TKSTRFCLICNYV-------SCIIQPLTSRCSKFRFKPLAENTML  202 (456)
Q Consensus       144 DE~d~l~~~~~~~Ll~~le~~--------------~~~~~lIl~~~~~-------~kl~~~l~~r~~~i~f~~~~~~el~  202 (456)
                      ||..-.+.+..++|.+.+++.              .++. .+|++.++       +.+-++++.|+..++|...+++++.
T Consensus       962 DELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp~F-~lFATQNppg~YgGRK~LSrAFRNRFlE~hFddipedEle 1040 (4600)
T COG5271         962 DELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHPNF-RLFATQNPPGGYGGRKGLSRAFRNRFLEMHFDDIPEDELE 1040 (4600)
T ss_pred             eccccCcHHHHHHHHHhhccccceecCCcceeeccCCCe-eEEeecCCCccccchHHHHHHHHhhhHhhhcccCcHHHHH
Confidence            999998999999999998752              2222 44555443       3467889999999999999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHH
Q psy12150        203 TRLQYICEQESVMCDFKALETLVETSGG-DMRRAIT  237 (456)
Q Consensus       203 ~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~  237 (456)
                      .+|..+     .++.+.....+++...| .+|+-.+
T Consensus      1041 ~ILh~r-----c~iapSyakKiVeVyr~Ls~rRs~~ 1071 (4600)
T COG5271        1041 EILHGR-----CEIAPSYAKKIVEVYRGLSSRRSIN 1071 (4600)
T ss_pred             HHHhcc-----CccCHHHHHHHHHHHHHhhhhhhHH
Confidence            999855     46788877777775543 4454444

>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=97.93  E-value=0.00092  Score=65.62  Aligned_cols=55  Identities=24%  Similarity=0.276  Sum_probs=39.5

Q ss_pred             HHHHHHHHHHhcCC--CCe-EEEECCCCCcHHHHHHHHHHHhcCC-ccccceEEeeCCC
Q psy12150         52 EVVSVLKKCLSGAD--LPH-FLFYGPPGTGKTSTMIAACHQLFGD-MYRERILELNASD  106 (456)
Q Consensus        52 ~~~~~l~~~l~~~~--~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~-~~~~~~~e~n~~~  106 (456)
                      ...+.|.+.+.+..  .+. +.|+|+=|+|||++++.+.+.+... .....++++|+..
T Consensus         3 ~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~   61 (325)
T PF07693_consen    3 PYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWE   61 (325)
T ss_pred             HHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEcccc
Confidence            34566777777653  333 9999999999999999999988765 2234556666654

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 [].

>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=97.92  E-value=2.2e-05  Score=69.24  Aligned_cols=65  Identities=9%  Similarity=0.235  Sum_probs=36.2

Q ss_pred             CcEEEEEcCCCCcc---HHHHHHHHHHHHhccCcceEEEEecC-cccccccccCC--ceEEEecCCCHHHHHH
Q psy12150        137 PFKIVILDEADSMT---HAAQAALRRTMEKETKSTRFCLICNY-VSCIIQPLTSR--CSKFRFKPLAENTMLT  203 (456)
Q Consensus       137 ~~~iviIDE~d~l~---~~~~~~Ll~~le~~~~~~~lIl~~~~-~~kl~~~l~~r--~~~i~f~~~~~~el~~  203 (456)
                      ...+++|||+..|-   +...+++.+.|+.  ...++..+-.. ...+.+.+.+|  +..++..+-+.+.+..
T Consensus        95 ~~~liviDEIG~mEl~~~~F~~~v~~~l~s--~~~vi~vv~~~~~~~~l~~i~~~~~~~i~~vt~~NRd~l~~  165 (168)
T PF03266_consen   95 SSDLIVIDEIGKMELKSPGFREAVEKLLDS--NKPVIGVVHKRSDNPFLEEIKRRPDVKIFEVTEENRDALPE  165 (168)
T ss_dssp             CCHEEEE---STTCCC-CHHHHHHHHHHCT--TSEEEEE--SS--SCCHHHHHTTTTSEEEE--TTTCCCHHH
T ss_pred             CCCEEEEeccchhhhcCHHHHHHHHHHHcC--CCcEEEEEecCCCcHHHHHHHhCCCcEEEEeChhHHhhHhh
Confidence            33599999998873   4557778888872  22333222223 34577788887  6678887777666543

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.

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=97.92  E-value=5.2e-05  Score=79.90  Aligned_cols=136  Identities=21%  Similarity=0.266  Sum_probs=79.0

Q ss_pred             cccccHHHHHHHHHHHhcCC---------C---CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHH-
Q psy12150         46 DVIEQQEVVSVLKKCLSGAD---------L---PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV-  112 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~~---------~---~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~-  112 (456)
                      .+.|++.++..+.=.+-+|.         .   -|+||.|.||+|||.+.+.+.+..-..    -+...-++...+... 
T Consensus       287 sIyG~e~VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aPr~----vytsgkgss~~GLTAa  362 (682)
T COG1241         287 SIYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAPRG----VYTSGKGSSAAGLTAA  362 (682)
T ss_pred             cccCcHHHHHHHHHHhcCCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCCce----EEEccccccccCceeE
Confidence            56777777766655543221         1   259999999999999999999864221    222222222111110 


Q ss_pred             -HHHHH-HHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-------------CcceEEEEecCc
Q psy12150        113 -IRDKV-KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTRFCLICNYV  177 (456)
Q Consensus       113 -i~~~l-~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-------------~~~~lIl~~~~~  177 (456)
                       .++.. .++.      ...+....++..|++|||+|.|......++.+.||...             ..+-++.++|+.
T Consensus       363 v~rd~~tge~~------LeaGALVlAD~Gv~cIDEfdKm~~~dr~aihEaMEQQtIsIaKAGI~atLnARcsvLAAaNP~  436 (682)
T COG1241         363 VVRDKVTGEWV------LEAGALVLADGGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAGITATLNARCSVLAAANPK  436 (682)
T ss_pred             EEEccCCCeEE------EeCCEEEEecCCEEEEEeccCCChHHHHHHHHHHHhcEeeecccceeeecchhhhhhhhhCCC
Confidence             11110 0000      00000011456699999999999999999999998642             223355566643


Q ss_pred             c-------------cccccccCCceEE
Q psy12150        178 S-------------CIIQPLTSRCSKF  191 (456)
Q Consensus       178 ~-------------kl~~~l~~r~~~i  191 (456)
                      .             .+.++|.||+..+
T Consensus       437 ~Gryd~~~~~~enI~l~~~lLSRFDLi  463 (682)
T COG1241         437 FGRYDPKKTVAENINLPAPLLSRFDLI  463 (682)
T ss_pred             CCcCCCCCCHHHhcCCChhHHhhCCee
Confidence            2             2467789998743

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.91  E-value=0.001  Score=67.10  Aligned_cols=204  Identities=19%  Similarity=0.189  Sum_probs=110.1

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh-HHHHHHHHHHHHhhccCCCC
Q psy12150         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI-QVIRDKVKTFAQQTASGFNQ  130 (456)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~-~~i~~~l~~~~~~~~~~~~~  130 (456)
                      .....+.+.+..... .++++||.+|||||+++.+.+.+...     .++++..+.... ....+....+......    
T Consensus        24 ~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~~~-----~iy~~~~d~~~~~~~l~d~~~~~~~~~~~----   93 (398)
T COG1373          24 KLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLLEE-----IIYINFDDLRLDRIELLDLLRAYIELKER----   93 (398)
T ss_pred             hhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhCCcc-----eEEEEecchhcchhhHHHHHHHHHHhhcc----
Confidence            334445555554433 69999999999999998888876442     455555543222 2223333333322111    


Q ss_pred             CCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC---cccccccccCCceEEEecCCCHHHHHH----
Q psy12150        131 DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY---VSCIIQPLTSRCSKFRFKPLAENTMLT----  203 (456)
Q Consensus       131 ~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~---~~kl~~~l~~r~~~i~f~~~~~~el~~----  203 (456)
                            ++..+|+||++.+.. -...+..+.+.... -++|.+++.   ..+....+..|...+++.|++-.|...    
T Consensus        94 ------~~~yifLDEIq~v~~-W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~~~~  165 (398)
T COG1373          94 ------EKSYIFLDEIQNVPD-WERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKLKGE  165 (398)
T ss_pred             ------CCceEEEecccCchh-HHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhhccc
Confidence                  223899999998854 23334444443332 233333332   245566788998999999999998865    


Q ss_pred             ---------HHHHHHHHcCCCC----CH------HHHH-----HHHHHcC-CCHHHHHHHHHHHHHhhCCCCCCHHHHHH
Q psy12150        204 ---------RLQYICEQESVMC----DF------KALE-----TLVETSG-GDMRRAITCLQSCARLKGGEGIVNEDVLE  258 (456)
Q Consensus       204 ---------~l~~~~~~~~~~i----~~------~~l~-----~L~~~s~-gdlr~~~~~L~~~~~~~~~~~It~~~v~~  258 (456)
                               .+.......|.+-    +.      +.++     -++++.+ -+...+...+..++.. .+..++...+..
T Consensus       166 ~~~~~~~~~~f~~Yl~~GGfP~~v~~~~~~~~~~~~~~~~~~~Di~~~~~~~~~~~~k~i~~~l~~~-~g~~~s~~~la~  244 (398)
T COG1373         166 EIEPSKLELLFEKYLETGGFPESVKADLSEKKLKEYLDTILKRDIIERGKIENADLMKRILRFLASN-IGSPISYSSLAR  244 (398)
T ss_pred             ccchhHHHHHHHHHHHhCCCcHHHhCcchhhHHHHHHHHHHHHHHHHHcCcccHHHHHHHHHHHHhh-cCCccCHHHHHH
Confidence                     3445555444321    11      1111     1222222 1332333333333332 356777777777


Q ss_pred             HhCCCCHHHHHHHHcc
Q psy12150        259 VTGVIPKPWIEKLLKV  274 (456)
Q Consensus       259 ~~~~~~~~~i~~l~~~  274 (456)
                      .++......+...++.
T Consensus       245 ~l~~is~~Ti~~Yl~~  260 (398)
T COG1373         245 ELKGISKDTIRKYLSY  260 (398)
T ss_pred             HHhccchHHHHHHHHH
Confidence            7742335556655555

>KOG0741|consensus

Probab=97.88  E-value=0.00036  Score=70.15  Aligned_cols=153  Identities=15%  Similarity=0.242  Sum_probs=85.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEe-eCCCCcCh------HHHHHHHHHHHHhhccCCCCCCCCCCCcEE
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL-NASDDRGI------QVIRDKVKTFAQQTASGFNQDGKPCPPFKI  140 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~-n~~~~~~~------~~i~~~l~~~~~~~~~~~~~~~~~~~~~~i  140 (456)
                      .+||+||||+|||++|-.++..-..     +++.+ ++.+..+.      ..+....++....             +-.+
T Consensus       540 SvLl~Gp~~sGKTaLAA~iA~~S~F-----PFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS-------------~lsi  601 (744)
T KOG0741|consen  540 SVLLEGPPGSGKTALAAKIALSSDF-----PFVKIISPEDMIGLSESAKCAHIKKIFEDAYKS-------------PLSI  601 (744)
T ss_pred             EEEEecCCCCChHHHHHHHHhhcCC-----CeEEEeChHHccCccHHHHHHHHHHHHHHhhcC-------------cceE
Confidence            3999999999999999999986422     44432 33332222      2233333333322             2339


Q ss_pred             EEEcCCCCccH----------HHHHHHHHHHHhccCc--ceEEEEecCccccccc--ccCCce-EEEecCCCH-HHHHHH
Q psy12150        141 VILDEADSMTH----------AAQAALRRTMEKETKS--TRFCLICNYVSCIIQP--LTSRCS-KFRFKPLAE-NTMLTR  204 (456)
Q Consensus       141 viIDE~d~l~~----------~~~~~Ll~~le~~~~~--~~lIl~~~~~~kl~~~--l~~r~~-~i~f~~~~~-~el~~~  204 (456)
                      |++|++++|..          ...++|+-.+.+.|+.  -.+|+++.....+...  +..-+. .++.+.++. +++.+.
T Consensus       602 ivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~v  681 (744)
T KOG0741|consen  602 IVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEV  681 (744)
T ss_pred             EEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHH
Confidence            99999988742          2355666666665544  4566766654433322  122222 677777765 666665


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHcCC-----CHHHHHHHHHHHH
Q psy12150        205 LQYICEQESVMCDFKALETLVETSGG-----DMRRAITCLQSCA  243 (456)
Q Consensus       205 l~~~~~~~~~~i~~~~l~~L~~~s~g-----dlr~~~~~L~~~~  243 (456)
                      +...     ..++++..+.+++.-.+     -+.+++..++.+.
T Consensus       682 l~~~-----n~fsd~~~~~~~~~~~~~~~~vgIKklL~lie~a~  720 (744)
T KOG0741|consen  682 LEEL-----NIFSDDEVRAIAEQLLSKKVNVGIKKLLMLIEMAR  720 (744)
T ss_pred             HHHc-----cCCCcchhHHHHHHHhccccchhHHHHHHHHHHHh
Confidence            5532     23555555555543322     2555666665544

>KOG0478|consensus

Probab=97.87  E-value=0.00026  Score=73.05  Aligned_cols=140  Identities=21%  Similarity=0.237  Sum_probs=79.7

Q ss_pred             cccccHHHHHHHHHHHh---------cCCCC---eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChH--
Q psy12150         46 DVIEQQEVVSVLKKCLS---------GADLP---HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ--  111 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~---------~~~~~---~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~--  111 (456)
                      +|.|++.++.-+.-.+-         ++++.   |+||+|.||+|||.+.+.+++-+-.+.+    ..--.+...+..  
T Consensus       430 sIye~edvKkglLLqLfGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~y----TSGkGsSavGLTay  505 (804)
T KOG0478|consen  430 SIYELEDVKKGLLLQLFGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVY----TSGKGSSAVGLTAY  505 (804)
T ss_pred             hhhcccchhhhHHHHHhcCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCccee----ecCCccchhcceee
Confidence            34556666555443332         22333   4999999999999999999986533211    111111100000  


Q ss_pred             -----HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc-------------cCcceEEEE
Q psy12150        112 -----VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-------------TKSTRFCLI  173 (456)
Q Consensus       112 -----~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~-------------~~~~~lIl~  173 (456)
                           +-++.+.   +.....       .++..+.+|||+|.|+......|.+.||.-             +..+-++.+
T Consensus       506 Vtrd~dtkqlVL---esGALV-------LSD~GiCCIDEFDKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAa  575 (804)
T KOG0478|consen  506 VTKDPDTRQLVL---ESGALV-------LSDNGICCIDEFDKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAA  575 (804)
T ss_pred             EEecCccceeee---ecCcEE-------EcCCceEEchhhhhhhHHHHHHHHHHHHHhhhhHhhcceeeeccccceeeee
Confidence                 0000000   000000       135559999999999999999999999853             233456666


Q ss_pred             ecCc------c-------cccccccCCceE--EEecCCCHH
Q psy12150        174 CNYV------S-------CIIQPLTSRCSK--FRFKPLAEN  199 (456)
Q Consensus       174 ~~~~------~-------kl~~~l~~r~~~--i~f~~~~~~  199 (456)
                      +|+.      .       .+.++|.+|+..  +-+.++++.
T Consensus       576 ANP~~skynp~k~i~eNI~LpptLLSRFDLIylllD~~DE~  616 (804)
T KOG0478|consen  576 ANPIRSKYNPNKSIIENINLPPTLLSRFDLIFLLLDKPDER  616 (804)
T ss_pred             eccccccCCCCCchhhccCCChhhhhhhcEEEEEecCcchh
Confidence            6631      1       246789999883  344666554

>PHA02624 large T antigen; Provisional

Probab=97.85  E-value=7.5e-05  Score=77.10  Aligned_cols=116  Identities=21%  Similarity=0.238  Sum_probs=68.7

Q ss_pred             HHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCC
Q psy12150         55 SVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK  133 (456)
Q Consensus        55 ~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  133 (456)
                      ..++.++++-.-.+ ++|+||||+|||+++.++++.+.+     .++.+|.+.....-.+        +..         
T Consensus       419 ~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L~G-----~vlsVNsPt~ks~FwL--------~pl---------  476 (647)
T PHA02624        419 DILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLCGG-----KSLNVNCPPDKLNFEL--------GCA---------  476 (647)
T ss_pred             HHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHcCC-----eEEEeeCCcchhHHHh--------hhh---------
Confidence            34455555443334 999999999999999999999865     3455665542221111        010         


Q ss_pred             CCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHhc-c-------------CcceEEEEecCcccccccccCCc
Q psy12150        134 PCPPFKIVILDEADSMTH-----------AAQAALRRTMEKE-T-------------KSTRFCLICNYVSCIIQPLTSRC  188 (456)
Q Consensus       134 ~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~~-~-------------~~~~lIl~~~~~~kl~~~l~~r~  188 (456)
                        .+.+++++|++-.-..           +...-|+.+|+.. +             .-+.+|+++|.+ .+...++-|+
T Consensus       477 --~D~~~~l~dD~t~~~~~~~~Lp~G~~~dNl~~lRn~LDG~V~v~ld~KH~n~~q~~~PPlliT~Ney-~iP~T~~~Rf  553 (647)
T PHA02624        477 --IDQFMVVFEDVKGQPADNKDLPSGQGMNNLDNLRDYLDGSVPVNLEKKHLNKRSQIFPPGIVTMNEY-LIPQTVKARF  553 (647)
T ss_pred             --hhceEEEeeeccccccccccCCcccccchhhHHHhhcCCCCccccchhccCchhccCCCeEEeecCc-ccchhHHHHH
Confidence              2556999999853222           1235567777643 1             113355566543 5566677776


Q ss_pred             e-EEEecC
Q psy12150        189 S-KFRFKP  195 (456)
Q Consensus       189 ~-~i~f~~  195 (456)
                      . .+.|.+
T Consensus       554 ~~~~~F~~  561 (647)
T PHA02624        554 AKVLDFKP  561 (647)
T ss_pred             HHhccccc
Confidence            5 666644

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

Probab=97.85  E-value=3.8e-05  Score=62.42  Aligned_cols=72  Identities=21%  Similarity=0.413  Sum_probs=44.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCc---cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDM---YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDE  145 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~---~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE  145 (456)
                      ++||||||+|||++++.+++.+....   ....+...+..+.        ....+               .+..++++||
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~~~~~~~--------~w~gY---------------~~q~vvi~DD   57 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYTRNPGDK--------FWDGY---------------QGQPVVIIDD   57 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEeCCCccc--------hhhcc---------------CCCcEEEEee
Confidence            47999999999999999998876421   1112222222220        00100               1334999999


Q ss_pred             CCCccHH----HHHHHHHHHHh
Q psy12150        146 ADSMTHA----AQAALRRTMEK  163 (456)
Q Consensus       146 ~d~l~~~----~~~~Ll~~le~  163 (456)
                      +......    ....+++++..
T Consensus        58 ~~~~~~~~~~~~~~~l~~l~s~   79 (107)
T PF00910_consen   58 FGQDNDGYNYSDESELIRLISS   79 (107)
T ss_pred             cCccccccchHHHHHHHHHHhc
Confidence            9887654    45556666654

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

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=97.79  E-value=1.5e-05  Score=78.47  Aligned_cols=134  Identities=22%  Similarity=0.240  Sum_probs=68.6

Q ss_pred             chhccCCCCcccccccHHHHHHHHHHHhcCC------------CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEe
Q psy12150         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGAD------------LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL  102 (456)
Q Consensus        35 w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~------------~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~  102 (456)
                      +++-..|    .+.|++.++..+.=.+-++.            .-|+||.|.||+|||.+.+.+++-..      ..+..
T Consensus        18 l~~s~aP----~i~g~~~iK~aill~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~p------r~v~~   87 (331)
T PF00493_consen   18 LANSIAP----SIYGHEDIKKAILLQLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLAP------RSVYT   87 (331)
T ss_dssp             CHHHCSS----TTTT-HHHHHHHCCCCTT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-S------SEEEE
T ss_pred             HHHHhCC----cCcCcHHHHHHHHHHHHhccccccccccccccccceeeccchhhhHHHHHHHHHhhCC------ceEEE
Confidence            3445555    46787776655433322111            12599999999999999987754321      12222


Q ss_pred             eCCCCcChHH----HHH------HHH-HHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc------
Q psy12150        103 NASDDRGIQV----IRD------KVK-TFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------  165 (456)
Q Consensus       103 n~~~~~~~~~----i~~------~l~-~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~------  165 (456)
                      ++......+-    .++      .++ ...-.            ++..|++|||++.+..+....|.+.||...      
T Consensus        88 ~g~~~s~~gLta~~~~d~~~~~~~leaGalvl------------ad~GiccIDe~dk~~~~~~~~l~eaMEqq~isi~ka  155 (331)
T PF00493_consen   88 SGKGSSAAGLTASVSRDPVTGEWVLEAGALVL------------ADGGICCIDEFDKMKEDDRDALHEAMEQQTISIAKA  155 (331)
T ss_dssp             ECCGSTCCCCCEEECCCGGTSSECEEE-HHHH------------CTTSEEEECTTTT--CHHHHHHHHHHHCSCEEECTS
T ss_pred             CCCCcccCCccceeccccccceeEEeCCchhc------------ccCceeeecccccccchHHHHHHHHHHcCeeccchh
Confidence            2211100000    000      000 00001            355599999999999999999999998632      


Q ss_pred             -------CcceEEEEecCcc-------------cccccccCCceE
Q psy12150        166 -------KSTRFCLICNYVS-------------CIIQPLTSRCSK  190 (456)
Q Consensus       166 -------~~~~lIl~~~~~~-------------kl~~~l~~r~~~  190 (456)
                             ..+.++.++|+..             .+.++|.+|+..
T Consensus       156 gi~~~l~ar~svlaa~NP~~g~~~~~~~~~~ni~l~~~LLSRFDL  200 (331)
T PF00493_consen  156 GIVTTLNARCSVLAAANPKFGRYDPNKSLSENINLPPPLLSRFDL  200 (331)
T ss_dssp             SSEEEEE---EEEEEE--TT--S-TTS-CGCCT-S-CCCHCC-SE
T ss_pred             hhcccccchhhhHHHHhhhhhhcchhhhhHHhcccchhhHhhcCE
Confidence                   3355666776432             245678888873

; 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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=97.79  E-value=0.00073  Score=71.79  Aligned_cols=181  Identities=18%  Similarity=0.211  Sum_probs=106.8

Q ss_pred             CCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHH
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~  120 (456)
                      |......+-++...+.+....   ...-++|+-|.|+||||++-.++. ...+......+.++.++.....-+...+...
T Consensus        15 P~~~~~~v~R~rL~~~L~~~~---~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wlslde~dndp~rF~~yLi~al   90 (894)
T COG2909          15 PVRPDNYVVRPRLLDRLRRAN---DYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLSLDESDNDPARFLSYLIAAL   90 (894)
T ss_pred             CCCcccccccHHHHHHHhcCC---CceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEeecCCccCCHHHHHHHHHHHH
Confidence            444455566665555444332   233499999999999999999987 4444444445555555532221111111111


Q ss_pred             HH--------------------------hhccCCCCCCCCCCCcEEEEEcCCCCccHHHH-HHHHHHHHhccCcceEEEE
Q psy12150        121 AQ--------------------------QTASGFNQDGKPCPPFKIVILDEADSMTHAAQ-AALRRTMEKETKSTRFCLI  173 (456)
Q Consensus       121 ~~--------------------------~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~-~~Ll~~le~~~~~~~lIl~  173 (456)
                      ..                          ..........+|.    .+|+||.+.++.... ..+...++..|+++.+|++
T Consensus        91 ~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl----~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~  166 (894)
T COG2909          91 QQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPL----YLVLDDYHLISDPALHEALRFLLKHAPENLTLVVT  166 (894)
T ss_pred             HHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCce----EEEeccccccCcccHHHHHHHHHHhCCCCeEEEEE
Confidence            10                          0000001112233    899999999987654 5566677778889999998


Q ss_pred             ecCcccc-cccccCCceEEEe----cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCH
Q psy12150        174 CNYVSCI-IQPLTSRCSKFRF----KPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDM  232 (456)
Q Consensus       174 ~~~~~kl-~~~l~~r~~~i~f----~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdl  232 (456)
                      +.....+ ...++=|...+++    -.++.+|..+++...   .+..++...++.|...++|=+
T Consensus       167 SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~---~~l~Ld~~~~~~L~~~teGW~  227 (894)
T COG2909         167 SRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDR---GSLPLDAADLKALYDRTEGWA  227 (894)
T ss_pred             eccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHc---CCCCCChHHHHHHHhhcccHH
Confidence            8765443 2233333332222    135677777777644   347899999999999998844

>PRK04296 thymidine kinase; Provisional

Probab=97.76  E-value=0.00013  Score=65.86  Aligned_cols=24  Identities=17%  Similarity=0.350  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+++||+|+|||+++..++..+..
T Consensus         5 ~litG~~GsGKTT~~l~~~~~~~~   28 (190)
T PRK04296          5 EFIYGAMNSGKSTELLQRAYNYEE   28 (190)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHH
Confidence            789999999999999888887643

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.69  E-value=0.0014  Score=63.74  Aligned_cols=48  Identities=19%  Similarity=0.229  Sum_probs=38.9

Q ss_pred             EEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHH
Q psy12150        190 KFRFKPLAENTMLTRLQYICEQESV---MCDFKALETLVETSGGDMRRAIT  237 (456)
Q Consensus       190 ~i~f~~~~~~el~~~l~~~~~~~~~---~i~~~~l~~L~~~s~gdlr~~~~  237 (456)
                      .+++++++.+|.+.+++......-+   ..++...+.+...++||+|++.+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el~k  308 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPRELEK  308 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHhcc
Confidence            7899999999999999988775433   35677778888888999998753

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).

>PRK10536 hypothetical protein; Provisional

Probab=97.69  E-value=0.00045  Score=64.50  Aligned_cols=125  Identities=16%  Similarity=0.134  Sum_probs=69.7

Q ss_pred             cccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH-hcCCccccceEEeeCCCC-------cCh-----
Q psy12150         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ-LFGDMYRERILELNASDD-------RGI-----  110 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~-l~~~~~~~~~~e~n~~~~-------~~~-----  110 (456)
                      +..+.+.+.....+..++...  ..+++.||+|||||+++.+++.. +..+.+  ..+.+.-+..       ...     
T Consensus        54 ~~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~~--~kIiI~RP~v~~ge~LGfLPG~~~e  129 (262)
T PRK10536         54 TSPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHKDV--DRIIVTRPVLQADEDLGFLPGDIAE  129 (262)
T ss_pred             CccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcCCe--eEEEEeCCCCCchhhhCcCCCCHHH
Confidence            344566666666777777653  36999999999999999999885 323222  2222211110       000     


Q ss_pred             ------HHHHHHHHHHHHh-----hc---cC---C----CCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcce
Q psy12150        111 ------QVIRDKVKTFAQQ-----TA---SG---F----NQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTR  169 (456)
Q Consensus       111 ------~~i~~~l~~~~~~-----~~---~~---~----~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~  169 (456)
                            ..+.+.+..+...     ..   .+   .    ...|++. +..+||+||++.++......++..+   ..++.
T Consensus       130 K~~p~~~pi~D~L~~~~~~~~~~~~~~~~~~~Iei~~l~ymRGrtl-~~~~vIvDEaqn~~~~~~k~~ltR~---g~~sk  205 (262)
T PRK10536        130 KFAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRTF-ENAVVILDEAQNVTAAQMKMFLTRL---GENVT  205 (262)
T ss_pred             HHHHHHHHHHHHHHHHhChHHHHHHHHhccCcEEEecHHHhcCCcc-cCCEEEEechhcCCHHHHHHHHhhc---CCCCE
Confidence                  1122222221110     00   00   0    0112332 3459999999999997666665444   56778


Q ss_pred             EEEEecC
Q psy12150        170 FCLICNY  176 (456)
Q Consensus       170 lIl~~~~  176 (456)
                      +|++++.
T Consensus       206 ~v~~GD~  212 (262)
T PRK10536        206 VIVNGDI  212 (262)
T ss_pred             EEEeCCh
Confidence            8887763

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=97.68  E-value=0.00011  Score=60.72  Aligned_cols=55  Identities=22%  Similarity=0.306  Sum_probs=38.8

Q ss_pred             cccccHHHHHH----HHHHHhcCCCCe---EEEECCCCCcHHHHHHHHHHHhcCCccccceE
Q psy12150         46 DVIEQQEVVSV----LKKCLSGADLPH---FLFYGPPGTGKTSTMIAACHQLFGDMYRERIL  100 (456)
Q Consensus        46 ~ivg~~~~~~~----l~~~l~~~~~~~---~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~  100 (456)
                      .+.||.-+.+.    |...+.+..+..   +-|+|++|||||.+++.+++.+.......+++
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V   87 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFV   87 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCce
Confidence            57788755544    455555443322   67999999999999999999987655444444

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

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.68  E-value=0.00034  Score=69.83  Aligned_cols=138  Identities=14%  Similarity=0.222  Sum_probs=70.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC----CccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCC-CC--------CCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG----DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ-DG--------KPC  135 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~----~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~-~~--------~~~  135 (456)
                      ++|+||+|+||||++..++..+..    ......++..|+...   ... +.+..+.......... ..        ...
T Consensus       177 i~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~---aa~-eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        177 FILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRI---GAK-KQIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccH---HHH-HHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            999999999999999999987642    122333444443321   111 1122222211000000 00        001


Q ss_pred             CCcEEEEEcCCCCccHH--HHHHHHHHHHhcc--CcceEEEEecCcccccccccCC-----ceEEEecCCCHHHHHHHHH
Q psy12150        136 PPFKIVILDEADSMTHA--AQAALRRTMEKET--KSTRFCLICNYVSCIIQPLTSR-----CSKFRFKPLAENTMLTRLQ  206 (456)
Q Consensus       136 ~~~~iviIDE~d~l~~~--~~~~Ll~~le~~~--~~~~lIl~~~~~~kl~~~l~~r-----~~~i~f~~~~~~el~~~l~  206 (456)
                      .++.+|+||.+..+..+  ....+.++++...  ..+.+|+.++....-...+.++     ...+-|..+++..-.--+-
T Consensus       253 ~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~~~~~~~~I~TKlDet~~~G~~l  332 (388)
T PRK12723        253 KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFSPFSYKTVIFTKLDETTCVGNLI  332 (388)
T ss_pred             CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhcCCCCCEEEEEeccCCCcchHHH
Confidence            35679999999988754  3355666666432  2466666665432222122122     2256666666655444333


Q ss_pred             HHHH
Q psy12150        207 YICE  210 (456)
Q Consensus       207 ~~~~  210 (456)
                      ..+.
T Consensus       333 ~~~~  336 (388)
T PRK12723        333 SLIY  336 (388)
T ss_pred             HHHH
Confidence            3333

>PF12169 DNA_pol3_gamma3: DNA polymerase III subunits gamma and tau domain III; InterPro: IPR022754 This domain is found in bacteria and eukaryotes, and is approximately 110 amino acids in length

Probab=97.64  E-value=0.00056  Score=58.62  Aligned_cols=123  Identities=17%  Similarity=0.247  Sum_probs=85.5

Q ss_pred             CCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHH
Q psy12150        251 IVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALE  323 (456)
Q Consensus       251 It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~  323 (456)
                      ||.++|.++++.+..+.+++++++   +|..+++..+++++.+|.+|..++    +.||++++....             
T Consensus         1 It~e~V~~~lG~v~~~~i~~l~~ai~~~d~~~~l~~~~~l~~~G~d~~~~l~~L~~~~R~ll~~k~~-------------   67 (143)
T PF12169_consen    1 ITAEDVREILGLVDEEQIFELLDAILEGDAAEALELLNELLEQGKDPKQFLDDLIEYLRDLLLYKIT-------------   67 (143)
T ss_dssp             B-HHHHHHHHTHTSTHHHHHHHHHHHTT-HHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHHHHTTS-------------
T ss_pred             CCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhC-------------
Confidence            689999999999999999999999   999999999999999999998876    555665511100             


Q ss_pred             HHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        324 TLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFH  403 (456)
Q Consensus       324 ~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~  403 (456)
                                          .          +.                             .....  .+.. -...+.
T Consensus        68 --------------------~----------~~-----------------------------~~~~~--~~~~-~~~~~~   85 (143)
T PF12169_consen   68 --------------------G----------DK-----------------------------SNLLE--LSEE-EEEKLK   85 (143)
T ss_dssp             --------------------G----------GG-----------------------------S-SG----CTT-THHHHH
T ss_pred             --------------------C----------ch-----------------------------hhccc--CCHH-HHHHHH
Confidence                                0          00                             00000  0111 112222


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        404 DIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       404 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      +...   .++.....++++.+.+++.+++.+.++++-+.-.+-.++..
T Consensus        86 ~~a~---~~~~~~l~~~~~~l~~~~~~lr~s~~pr~~lE~~llrl~~~  130 (143)
T PF12169_consen   86 ELAK---KFSPERLQRILQILLEAENELRYSSNPRILLEMALLRLCQL  130 (143)
T ss_dssp             HHHH---HS-HHHHHHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHHT
T ss_pred             HHHH---cCCHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHH
Confidence            2233   46888889999999999999999999999999888888774

It is found in association with PF00004 from PFAM. This domain is also present in the tau subunit before it undergoes cleavage. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G.

>KOG0480|consensus

Probab=97.63  E-value=0.0015  Score=67.25  Aligned_cols=109  Identities=24%  Similarity=0.282  Sum_probs=63.3

Q ss_pred             ccccccHHHHHHHHHHHhcCC------------CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHH
Q psy12150         45 DDVIEQQEVVSVLKKCLSGAD------------LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV  112 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~~~------------~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~  112 (456)
                      -.+.|++.++.-+.-.+-+|.            -.|+++.|.||+||+.+.++.+.-+-.    .-+..-+++...+...
T Consensus       345 PsIyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR----~vYtsGkaSSaAGLTa  420 (764)
T KOG0480|consen  345 PSIYGHELVKAGILLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPR----SVYTSGKASSAAGLTA  420 (764)
T ss_pred             ccccchHHHHhhHHHHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCc----ceEecCcccccccceE
Confidence            356688887766655553321            135999999999999999998875321    1222223332111100


Q ss_pred             --HHHH-HHHHH-HhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc
Q psy12150        113 --IRDK-VKTFA-QQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (456)
Q Consensus       113 --i~~~-l~~~~-~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~  164 (456)
                        +++. -.+|. .......       ++..|-.|||+|.|....+.++.+.||.-
T Consensus       421 aVvkD~esgdf~iEAGALmL-------ADnGICCIDEFDKMd~~dqvAihEAMEQQ  469 (764)
T KOG0480|consen  421 AVVKDEESGDFTIEAGALML-------ADNGICCIDEFDKMDVKDQVAIHEAMEQQ  469 (764)
T ss_pred             EEEecCCCCceeeecCcEEE-------ccCceEEechhcccChHhHHHHHHHHHhh
Confidence              0000 00000 0000001       34559999999999998899999999863

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.63  E-value=0.0006  Score=67.21  Aligned_cols=128  Identities=16%  Similarity=0.221  Sum_probs=70.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc--CCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCC--CC-------CCCCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF--GDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFN--QD-------GKPCPP  137 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~--~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~--~~-------~~~~~~  137 (456)
                      +.|.||.|+||||+.-.+|..+.  .+..+..++..|.-.....+.+    ..++........  ..       -....+
T Consensus       206 i~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQL----k~Ya~im~vp~~vv~~~~el~~ai~~l~~  281 (407)
T COG1419         206 IALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQL----KTYADIMGVPLEVVYSPKELAEAIEALRD  281 (407)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHH----HHHHHHhCCceEEecCHHHHHHHHHHhhc
Confidence            99999999999999888887765  3444445555544432222222    222111000000  00       000135


Q ss_pred             cEEEEEcCCCCccHH--HHHHHHHHHHhc-cCcceEEEEecCcccccccccCCce-----EEEecCCCHHH
Q psy12150        138 FKIVILDEADSMTHA--AQAALRRTMEKE-TKSTRFCLICNYVSCIIQPLTSRCS-----KFRFKPLAENT  200 (456)
Q Consensus       138 ~~iviIDE~d~l~~~--~~~~Ll~~le~~-~~~~~lIl~~~~~~kl~~~l~~r~~-----~i~f~~~~~~e  200 (456)
                      +++|+||-+.+-..+  ....|..++... +-.+.+++.++...+.++.+..++.     -+-|.++++..
T Consensus       282 ~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~~~i~~~I~TKlDET~  352 (407)
T COG1419         282 CDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSLFPIDGLIFTKLDETT  352 (407)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhccCCcceeEEEcccccC
Confidence            679999998765433  345566666543 4456677777765555555444433     45566666544

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.62  E-value=0.00092  Score=75.11  Aligned_cols=139  Identities=14%  Similarity=0.188  Sum_probs=89.7

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCC-----C
Q psy12150         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGF-----N  129 (456)
Q Consensus        55 ~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~-----~  129 (456)
                      .++.+++.-++  ++++-|.||+|||+++.++|+..+.     ..+.+|.++....-       ++.+.....-     .
T Consensus      1534 ~rVlRAmqv~k--pilLEGsPGVGKTSlItaLAr~tG~-----kliRINLSeQTdL~-------DLfGsd~Pve~~Gef~ 1599 (4600)
T COG5271        1534 RRVLRAMQVGK--PILLEGSPGVGKTSLITALARKTGK-----KLIRINLSEQTDLC-------DLFGSDLPVEEGGEFR 1599 (4600)
T ss_pred             HHHHHHHhcCC--ceeecCCCCccHHHHHHHHHHHhcC-----ceEEeeccccchHH-------HHhCCCCCcccCceeE
Confidence            34555555443  4899999999999999999999765     45667776632221       1111100000     0


Q ss_pred             CCCCC----CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc--------------CcceEEEEecC-------cccccccc
Q psy12150        130 QDGKP----CPPFKIVILDEADSMTHAAQAALRRTMEKET--------------KSTRFCLICNY-------VSCIIQPL  184 (456)
Q Consensus       130 ~~~~~----~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~--------------~~~~lIl~~~~-------~~kl~~~l  184 (456)
                      ....|    ..+..-|++||+.-.+....+.|...++...              ++. .||++.+       ++-+.+.+
T Consensus      1600 w~dapfL~amr~G~WVlLDEiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~Hpnf-rVFAaqNPq~qggGRKgLPkSF 1678 (4600)
T COG5271        1600 WMDAPFLHAMRDGGWVLLDEINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNF-RVFAAQNPQDQGGGRKGLPKSF 1678 (4600)
T ss_pred             ecccHHHHHhhcCCEEEeehhhhhHHHHHHHHHHHHhhccccccccccceeeccCCe-eeeeecCchhcCCCcccCCHHH
Confidence            00000    0233489999998888888888887776421              223 3455533       35578899


Q ss_pred             cCCceEEEecCCCHHHHHHHHHHH
Q psy12150        185 TSRCSKFRFKPLAENTMLTRLQYI  208 (456)
Q Consensus       185 ~~r~~~i~f~~~~~~el~~~l~~~  208 (456)
                      ..|+.++.+..++.+++..+....
T Consensus      1679 ~nRFsvV~~d~lt~dDi~~Ia~~~ 1702 (4600)
T COG5271        1679 LNRFSVVKMDGLTTDDITHIANKM 1702 (4600)
T ss_pred             hhhhheEEecccccchHHHHHHhh
Confidence            999999999999999988776543

>KOG3347|consensus

Probab=97.61  E-value=7.7e-05  Score=62.67  Aligned_cols=25  Identities=32%  Similarity=0.542  Sum_probs=22.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .|++|++|.||+||||++..++..+
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh
Confidence            4679999999999999999999876

>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=97.58  E-value=0.00022  Score=64.56  Aligned_cols=128  Identities=16%  Similarity=0.227  Sum_probs=64.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhc---cCCCCCCCC-----------
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTA---SGFNQDGKP-----------  134 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~---~~~~~~~~~-----------  134 (456)
                      ++|.||+|+||||++-.++..+.....+..++..+.......+.+    +.++....   ........+           
T Consensus         4 i~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL----~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~   79 (196)
T PF00448_consen    4 IALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQL----KTYAEILGVPFYVARTESDPAEIAREALEKF   79 (196)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHH----HHHHHHHTEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHH----HHHHHHhccccchhhcchhhHHHHHHHHHHH
Confidence            899999999999999999988765444334444443332222222    22221111   100000000           


Q ss_pred             -CCCcEEEEEcCCCCccHH--HHHHHHHHHHhc-cCcceEEEEecCccccccccc---CC--ceEEEecCCCHHH
Q psy12150        135 -CPPFKIVILDEADSMTHA--AQAALRRTMEKE-TKSTRFCLICNYVSCIIQPLT---SR--CSKFRFKPLAENT  200 (456)
Q Consensus       135 -~~~~~iviIDE~d~l~~~--~~~~Ll~~le~~-~~~~~lIl~~~~~~kl~~~l~---~r--~~~i~f~~~~~~e  200 (456)
                       ..++.+|+||-+.....+  ..+.+.++++.. +..+.+|+.++........+.   +.  ...+-|.++++..
T Consensus        80 ~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~~~~~lIlTKlDet~  154 (196)
T PF00448_consen   80 RKKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEAFGIDGLILTKLDETA  154 (196)
T ss_dssp             HHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHSSTCEEEEESTTSSS
T ss_pred             hhcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhcccCceEEEEeecCCC
Confidence             013569999999877543  345555555543 445667766654322221211   11  1245566776644

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 ....

>PTZ00202 tuzin; Provisional

Probab=97.51  E-value=0.003  Score=63.08  Aligned_cols=52  Identities=25%  Similarity=0.349  Sum_probs=43.4

Q ss_pred             CCCCcccccccHHHHHHHHHHHhcCCC--Ce-EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         40 RPKTIDDVIEQQEVVSVLKKCLSGADL--PH-FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        40 ~P~~~~~ivg~~~~~~~l~~~l~~~~~--~~-~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .|....+++|++..+..|...+.+...  +. .+|.|++|+|||++++.+...+.
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~  311 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG  311 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC
Confidence            466778999999999999999975433  22 89999999999999999998753

>COG3899 Predicted ATPase [General function prediction only]

Probab=97.49  E-value=0.017  Score=63.85  Aligned_cols=104  Identities=13%  Similarity=0.117  Sum_probs=68.2

Q ss_pred             EEEEEcCCCCccHHHHHHHHHHHHhcc-----CcceEEEEecCccccccccc--CCceEEEecCCCHHHHHHHHHHHHHH
Q psy12150        139 KIVILDEADSMTHAAQAALRRTMEKET-----KSTRFCLICNYVSCIIQPLT--SRCSKFRFKPLAENTMLTRLQYICEQ  211 (456)
Q Consensus       139 ~iviIDE~d~l~~~~~~~Ll~~le~~~-----~~~~lIl~~~~~~kl~~~l~--~r~~~i~f~~~~~~el~~~l~~~~~~  211 (456)
                      -|+|+||++...+...+.|-..|....     .+.++++. +....+....+  .+...+.+.|++..+....+...+..
T Consensus       156 lVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h-~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~  234 (849)
T COG3899         156 LVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLH-PLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGC  234 (849)
T ss_pred             eEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCC-CccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCC
Confidence            389999999998888776666665543     11222111 11111111112  22458999999999999999988864


Q ss_pred             cCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy12150        212 ESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (456)
Q Consensus       212 ~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~  244 (456)
                       ......+..+.+.+.+.|++==+...++.+..
T Consensus       235 -~~~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~  266 (849)
T COG3899         235 -TKLLPAPLLELIFEKTKGNPFFIEEFLKALYE  266 (849)
T ss_pred             -cccccchHHHHHHHHhcCCCccHHHHHHHHHh
Confidence             34678888999999999976555555544433

>KOG0477|consensus

Probab=97.47  E-value=0.00056  Score=69.92  Aligned_cols=149  Identities=16%  Similarity=0.251  Sum_probs=82.0

Q ss_pred             cccccHHHHHHHHHHHhcCCC------------CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChH-H
Q psy12150         46 DVIEQQEVVSVLKKCLSGADL------------PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ-V  112 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~~~------------~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~-~  112 (456)
                      .+.|+..++..+.-.+-+|..            -|+||.|.|||||+.+.+.+.+......    +..--++...+.. .
T Consensus       450 sIyGh~~VK~AvAlaLfGGv~kn~~~khkvRGDinvLL~GDPGTaKSQFLKY~eK~s~RAV----~tTGqGASavGLTa~  525 (854)
T KOG0477|consen  450 SIYGHEDVKRAVALALFGGVPKNPGGKHKVRGDINVLLLGDPGTAKSQFLKYAEKTSPRAV----FTTGQGASAVGLTAY  525 (854)
T ss_pred             hhhchHHHHHHHHHHHhcCCccCCCCCceeccceeEEEecCCCccHHHHHHHHHhcCccee----EeccCCccccceeEE
Confidence            467888888777777654431            1499999999999999999887532211    1111111100000 0


Q ss_pred             HHHH--HHHH-HHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-------------CcceEEEEecC
Q psy12150        113 IRDK--VKTF-AQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTRFCLICNY  176 (456)
Q Consensus       113 i~~~--l~~~-~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-------------~~~~lIl~~~~  176 (456)
                      ++..  -+++ .....       ...+++.|.+|||+|.|.......+-+.||.-+             ..+.+|.++|+
T Consensus       526 v~KdPvtrEWTLEaGA-------LVLADkGvClIDEFDKMndqDRtSIHEAMEQQSISISKAGIVtsLqArctvIAAanP  598 (854)
T KOG0477|consen  526 VRKDPVTREWTLEAGA-------LVLADKGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARCTVIAAANP  598 (854)
T ss_pred             EeeCCccceeeeccCe-------EEEccCceEEeehhhhhcccccchHHHHHHhcchhhhhhhHHHHHHhhhhhheecCC
Confidence            0000  0000 00000       011466799999999998766555555555422             33556777775


Q ss_pred             ---cc----------cccccccCCceEEE-----ecCCCHHHHHHHH
Q psy12150        177 ---VS----------CIIQPLTSRCSKFR-----FKPLAENTMLTRL  205 (456)
Q Consensus       177 ---~~----------kl~~~l~~r~~~i~-----f~~~~~~el~~~l  205 (456)
                         +.          ++..++.||+.++.     +.|...+.+.+++
T Consensus       599 igGRY~~s~tFaqNV~ltePIlSRFDiLcVvkD~vd~~~De~lA~fV  645 (854)
T KOG0477|consen  599 IGGRYNPSLTFAQNVDLTEPILSRFDILCVVKDTVDPVQDEKLAKFV  645 (854)
T ss_pred             CCCccCCccchhhccccccchhhhcceeeeeecccCchhHHHHHHHH
Confidence               22          46788999976332     3444445555544

>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=97.46  E-value=0.0002  Score=71.04  Aligned_cols=114  Identities=18%  Similarity=0.147  Sum_probs=63.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcCCc-cccceEEeeCCC------C-cChHHHHHHHHHHHHhhccCCCCCCCCCCCc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFGDM-YRERILELNASD------D-RGIQVIRDKVKTFAQQTASGFNQDGKPCPPF  138 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-~~~~~~e~n~~~------~-~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~  138 (456)
                      .+++|||++|+|||.++..+.+.+..+. .+..+.++=..-      . ...+.+......+.              .+.
T Consensus        63 ~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~vh~~l~~~~~~~~~l~~va~~l~--------------~~~  128 (362)
T PF03969_consen   63 KGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLRGQDDPLPQVADELA--------------KES  128 (362)
T ss_pred             ceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHhCCCccHHHHHHHHH--------------hcC
Confidence            3499999999999999999999875421 111111110000      0 01111222222221              244


Q ss_pred             EEEEEcCCCCccHHH---HHHHHHHHHhccCcceEEEEecCc-ccc-------------cccccCCceEEEecCC
Q psy12150        139 KIVILDEADSMTHAA---QAALRRTMEKETKSTRFCLICNYV-SCI-------------IQPLTSRCSKFRFKPL  196 (456)
Q Consensus       139 ~iviIDE~d~l~~~~---~~~Ll~~le~~~~~~~lIl~~~~~-~kl-------------~~~l~~r~~~i~f~~~  196 (456)
                      ++|++||++--....   ...|++.+-  ...+++|.|+|.. ..+             +..|.++|.++++...
T Consensus       129 ~lLcfDEF~V~DiaDAmil~rLf~~l~--~~gvvlVaTSN~~P~~Ly~~gl~r~~Flp~I~~l~~~~~vv~ld~~  201 (362)
T PF03969_consen  129 RLLCFDEFQVTDIADAMILKRLFEALF--KRGVVLVATSNRPPEDLYKNGLQRERFLPFIDLLKRRCDVVELDGG  201 (362)
T ss_pred             CEEEEeeeeccchhHHHHHHHHHHHHH--HCCCEEEecCCCChHHHcCCcccHHHHHHHHHHHHhceEEEEecCC
Confidence            599999987543332   233444443  2457788888853 222             3456788888888665

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

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=97.46  E-value=0.00024  Score=70.65  Aligned_cols=92  Identities=20%  Similarity=0.263  Sum_probs=51.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh--cCCccccceEEeeCCCCcChHHHHHHHHHHH----------HhhccC--CCCCCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL--FGDMYRERILELNASDDRGIQVIRDKVKTFA----------QQTASG--FNQDGKP  134 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l--~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~----------~~~~~~--~~~~~~~  134 (456)
                      +++.|.||||||.++-.+++.+  ........++..|...   ...++..+....          ....+.  ......+
T Consensus         4 ~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l---~~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   80 (352)
T PF09848_consen    4 ILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPL---RNKLREQLAKKYNPKLKKSDFRKPTSFINNYSESDKE   80 (352)
T ss_pred             EEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchH---HHHHHHHHhhhcccchhhhhhhhhHHHHhhccccccc
Confidence            7999999999999999999998  3333333344444332   122222221111          000000  0001112


Q ss_pred             CCCcEEEEEcCCCCccHH--------HHHHHHHHHHh
Q psy12150        135 CPPFKIVILDEADSMTHA--------AQAALRRTMEK  163 (456)
Q Consensus       135 ~~~~~iviIDE~d~l~~~--------~~~~Ll~~le~  163 (456)
                      ...+.+|||||++.|...        ..+.|..++..
T Consensus        81 ~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~  117 (352)
T PF09848_consen   81 KNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKR  117 (352)
T ss_pred             CCcCCEEEEehhHhhhhccccccccccHHHHHHHHhc
Confidence            246789999999999872        23556666665

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>KOG2228|consensus

Probab=97.45  E-value=0.0014  Score=62.55  Aligned_cols=164  Identities=15%  Similarity=0.185  Sum_probs=83.8

Q ss_pred             cccccHHHHHHHHHH----HhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHH
Q psy12150         46 DVIEQQEVVSVLKKC----LSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFA  121 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~----l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~  121 (456)
                      .+.|.......+.++    +..|....+++.||.|+|||.++.........-.-..-.+.+|+.-....-.+.+....+.
T Consensus        25 ~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rql~  104 (408)
T KOG2228|consen   25 NLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQLA  104 (408)
T ss_pred             ceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHHHH
Confidence            356655444444444    4456665699999999999998876655411111112345566654332222333322222


Q ss_pred             Hhhcc------CCCC-----------CCCCCCCcEEEEEcCCCCccHH-HHHHHHHHHHhc--cCcce-EEEEecCc---
Q psy12150        122 QQTAS------GFNQ-----------DGKPCPPFKIVILDEADSMTHA-AQAALRRTMEKE--TKSTR-FCLICNYV---  177 (456)
Q Consensus       122 ~~~~~------~~~~-----------~~~~~~~~~iviIDE~d~l~~~-~~~~Ll~~le~~--~~~~~-lIl~~~~~---  177 (456)
                      .....      .+..           ++...+..-+.|+||+|.+.+. .|-.|.++++-.  ...++ ++.++...   
T Consensus       105 ~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~l  184 (408)
T KOG2228|consen  105 LELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDIL  184 (408)
T ss_pred             HHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccHH
Confidence            21110      0010           1122223335666789977654 444455555432  23333 33333322   


Q ss_pred             ccccccccCCce---EEEecCCCHHHHHHHHHHHH
Q psy12150        178 SCIIQPLTSRCS---KFRFKPLAENTMLTRLQYIC  209 (456)
Q Consensus       178 ~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~  209 (456)
                      ..+-+.+++|+.   ++-+++.+-++..++++..+
T Consensus       185 E~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  185 ELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             HHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            334567788876   33445556677777777665

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.45  E-value=0.00032  Score=64.41  Aligned_cols=20  Identities=55%  Similarity=0.835  Sum_probs=18.6

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      ++|||+||+|||++++.+..
T Consensus        15 ~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        15 YLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             EEEECCCCCCHHHHHHhcCC
Confidence            99999999999999998864

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.42  E-value=0.00096  Score=65.98  Aligned_cols=139  Identities=17%  Similarity=0.207  Sum_probs=67.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCC------------C
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKP------------C  135 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~------------~  135 (456)
                      .++|.||+|+||||++..++..+.....  .+.-+++...+ ...+. .+..+.............+            .
T Consensus       243 vI~LVGptGvGKTTTiaKLA~~L~~~Gk--kVglI~aDt~R-iaAvE-QLk~yae~lgipv~v~~d~~~L~~aL~~lk~~  318 (436)
T PRK11889        243 TIALIGPTGVGKTTTLAKMAWQFHGKKK--TVGFITTDHSR-IGTVQ-QLQDYVKTIGFEVIAVRDEAAMTRALTYFKEE  318 (436)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHcCC--cEEEEecCCcc-hHHHH-HHHHHhhhcCCcEEecCCHHHHHHHHHHHHhc
Confidence            3899999999999999999988764433  23333333222 11111 1111111100000000000            0


Q ss_pred             CCcEEEEEcCCCCccH--HHHHHHHHHHHhccC-cceEEEEecCcc----cccccccCC-ceEEEecCCCHHHHHHHHHH
Q psy12150        136 PPFKIVILDEADSMTH--AAQAALRRTMEKETK-STRFCLICNYVS----CIIQPLTSR-CSKFRFKPLAENTMLTRLQY  207 (456)
Q Consensus       136 ~~~~iviIDE~d~l~~--~~~~~Ll~~le~~~~-~~~lIl~~~~~~----kl~~~l~~r-~~~i~f~~~~~~el~~~l~~  207 (456)
                      .++.+||||-+.....  .....+.+++....+ .+.+++.++...    .+.+.+... ...+-|.++++..-.--+-.
T Consensus       319 ~~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i~~~F~~~~idglI~TKLDET~k~G~iLn  398 (436)
T PRK11889        319 ARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKDIHIDGIVFTKFDETASSGELLK  398 (436)
T ss_pred             cCCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHHHHHhcCCCCCEEEEEcccCCCCccHHHH
Confidence            1356999999988753  345666666654333 344554433221    122222221 22566666666554333333


Q ss_pred             HHH
Q psy12150        208 ICE  210 (456)
Q Consensus       208 ~~~  210 (456)
                      ++.
T Consensus       399 i~~  401 (436)
T PRK11889        399 IPA  401 (436)
T ss_pred             HHH
Confidence            333

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.40  E-value=0.0011  Score=57.61  Aligned_cols=24  Identities=29%  Similarity=0.618  Sum_probs=21.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|+|+||+|||+++..++.....
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~   25 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIAT   25 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHh
Confidence            689999999999999999988753

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.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.40  E-value=0.002  Score=65.66  Aligned_cols=130  Identities=10%  Similarity=0.142  Sum_probs=92.7

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh----hCChHHHHHHHHHHHHcCCCH
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK----VDSFQVLEKYIEDLILEAYSA  395 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~g~s~  395 (456)
                      +++..+.+.+.||||+++++|..+.... +..|+.+.|.+++|+.....+..+++    .++..++...+..++..|...
T Consensus       203 eAL~~Ia~~S~Gd~RdAL~lLeq~i~~~-~~~it~~~V~~~lg~~~~~~~~~l~~si~~~d~~~~al~~l~~l~~~G~d~  281 (484)
T PRK14956        203 EGLFWIAKKGDGSVRDMLSFMEQAIVFT-DSKLTGVKIRKMIGYHGIEFLTSFIKSLIDPDNHSKSLEILESLYQEGQDI  281 (484)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHhC-CCCcCHHHHHHHhCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCH
Confidence            5678888999999999999997665432 23588888999999998777777664    345778888999999999999


Q ss_pred             HHHHHHHHHHHhcC------------CCCCHHHH---------------HHHHHHH----HHH-HhhhhcCCChhHHHHH
Q psy12150        396 TQLFDQFHDIVMSA------------SSLSDKQK---------------ALILEKL----AEC-NARLQDGASEYIQILD  443 (456)
Q Consensus       396 ~di~~~l~~~~~~~------------~~~~~~~~---------------~~~~~~l----~~~-~~~l~~g~~~~~ql~~  443 (456)
                      ..++..|..++...            -++|++.+               .+++..+    ..+ +.+++...+.++.+.-
T Consensus       282 ~~~~~~l~~~~r~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~s~~~r~~~E~  361 (484)
T PRK14956        282 YKFLWDSIEFTHTLNLIRDSLADRESVNFPKEDLQKMKSDFENVDSSKLNFLSGKLFEIYEKIKTIRLRNSFEIKVFTEI  361 (484)
T ss_pred             HHHHHHHHHHHHHHHHHhhcccchhhccCCHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHhhhccCCCchHHHHH
Confidence            99988885443321            12343333               3333222    222 4567778888988887


Q ss_pred             HHHHHHH
Q psy12150        444 LGSIVIK  450 (456)
Q Consensus       444 l~~~~~~  450 (456)
                      .+..++.
T Consensus       362 ~~~~l~~  368 (484)
T PRK14956        362 QIKKLVE  368 (484)
T ss_pred             HHHHHhc
Confidence            7777764

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=97.39  E-value=0.0016  Score=57.83  Aligned_cols=44  Identities=27%  Similarity=0.362  Sum_probs=35.6

Q ss_pred             ccHHHHHHHHHHHhcC-CCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         49 EQQEVVSVLKKCLSGA-DLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        49 g~~~~~~~l~~~l~~~-~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .|.+++..+.+.+... ...+++|.+|+|+|||.++-.++..+..
T Consensus         7 ~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~   51 (184)
T PF04851_consen    7 YQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR   51 (184)
T ss_dssp             HHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc
Confidence            4677788888888876 5567999999999999999987776643

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=97.34  E-value=0.0032  Score=59.42  Aligned_cols=182  Identities=19%  Similarity=0.190  Sum_probs=97.1

Q ss_pred             CcccccccHHH---HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHH
Q psy12150         43 TIDDVIEQQEV---VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (456)
Q Consensus        43 ~~~~ivg~~~~---~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~  119 (456)
                      ...++++-...   +..+..+-+.|.  -..+||.+|.|||..++.+++.-.      +...+.++.......+...+..
T Consensus        70 ~~~~~l~tkt~r~~~~~~~~A~k~g~--l~~vyg~~g~gKt~a~~~y~~s~p------~~~l~~~~p~~~a~~~i~~i~~  141 (297)
T COG2842          70 LAPDFLETKTVRRIFFRTRPASKTGS--LVVVYGYAGLGKTQAAKNYAPSNP------NALLIEADPSYTALVLILIICA  141 (297)
T ss_pred             ccccccccchhHhHhhhhhhhhhcCc--eEEEeccccchhHHHHHhhcccCc------cceeecCChhhHHHHHHHHHHH
Confidence            44456665543   333333334443  389999999999999999988631      2222222221111111111111


Q ss_pred             HH------------HhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCC
Q psy12150        120 FA------------QQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSR  187 (456)
Q Consensus       120 ~~------------~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r  187 (456)
                      ..            .......  .    ...++|++||+++|....++.|.+..++..  +-++++.+++  +.+-+++.
T Consensus       142 ~~~~~~~~~~~d~~~~~~~~l--~----~~~~~iivDEA~~L~~~ale~lr~i~d~~G--i~~vLvG~pr--L~~~l~~~  211 (297)
T COG2842         142 AAFGATDGTINDLTERLMIRL--R----DTVRLIIVDEADRLPYRALEELRRIHDKTG--IGVVLVGMPR--LFKVLRRP  211 (297)
T ss_pred             HHhcccchhHHHHHHHHHHHH--c----cCcceeeeehhhccChHHHHHHHHHHHhhC--ceEEEecChH--HHhccccc
Confidence            00            0000000  0    134599999999999999999988877654  3355555543  22222111


Q ss_pred             c-------eEEEecCCC------HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh
Q psy12150        188 C-------SKFRFKPLA------ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK  246 (456)
Q Consensus       188 ~-------~~i~f~~~~------~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~  246 (456)
                      .       ..+.|....      .+++..+....+    ....++.+..+...++|++|.+-..+.-+...+
T Consensus       212 ~~~~~rl~srv~v~~~~~~~~~d~d~~~~~~~~~l----~~~~~~~v~~~~~~~~g~~~~L~~~l~~~~~~a  279 (297)
T COG2842         212 EDELSRLYSRVRVGKLLGEKFPDADELAEIAALVL----PTEDELVLMQVIKETEGNIRRLDKILAGAVGTA  279 (297)
T ss_pred             hHHHHHHHHHhhhHhhhhhhhhhhHHHHHHHHhhC----ccchHHHHHHHHHhcchhHhHHHHHHhhhhhhh
Confidence            0       122222222      233333322222    125677777888888999998888886655544

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.33  E-value=0.00092  Score=59.51  Aligned_cols=30  Identities=30%  Similarity=0.589  Sum_probs=26.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcCCccc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYR   96 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~   96 (456)
                      +-++|+|+||+|||++++.+++.+....+.
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~   31 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEIWR   31 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhhhh
Confidence            458999999999999999999999776554

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.29  E-value=0.00036  Score=71.92  Aligned_cols=50  Identities=16%  Similarity=0.267  Sum_probs=41.0

Q ss_pred             CCcccccccHHHHHHHHHHH----hcCCCC--eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         42 KTIDDVIEQQEVVSVLKKCL----SGADLP--HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l----~~~~~~--~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .-|+++.|.+++++++..++    .+....  .++|.||||+|||++++.+++.+.
T Consensus        73 ~fF~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le  128 (644)
T PRK15455         73 PAFEEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLME  128 (644)
T ss_pred             cchhcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHH
Confidence            45899999999998888777    333222  399999999999999999999774

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.23  E-value=0.00093  Score=69.28  Aligned_cols=115  Identities=17%  Similarity=0.208  Sum_probs=100.9

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCHH
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSAT  396 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~  396 (456)
                      +++..+.+.++||||+++|.||.+...  +..|+.++|++++|.+++..+-++++   .+++.++...+..|+..|++..
T Consensus       198 ~Al~~ia~~s~GdlR~aln~Lekl~~~--~~~It~~~V~~~l~~~~~~~if~Li~al~~~d~~~Al~~l~~Ll~~G~~~~  275 (504)
T PRK14963        198 EALQLVARLADGAMRDAESLLERLLAL--GTPVTRKQVEEALGLPPQERLRGIAAALAQGDAAEALSGAAQLYRDGFAAR  275 (504)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhc--CCCCCHHHHHHHHCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHH
Confidence            467778899999999999999998653  33689999999999999888877775   5899999999999999999999


Q ss_pred             HHHHHHHHHHh-------------cCCCCCHHHHHHHHHHHHHHHhhhhcCCCh
Q psy12150        397 QLFDQFHDIVM-------------SASSLSDKQKALILEKLAECNARLQDGASE  437 (456)
Q Consensus       397 di~~~l~~~~~-------------~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~  437 (456)
                      +|+..|++.+.             .. ++++..+..+++.|+++|+|+..|++-
T Consensus       276 ~Il~~L~~~~r~ll~~k~~~~~~~~~-~~~~~~~~~~l~~l~~~~~~~~~~~~~  328 (504)
T PRK14963        276 TLVEGLLEAFRAALYAELGLGGGPRL-EGAEPRLLAAMTALDEQMERFARRSDA  328 (504)
T ss_pred             HHHHHHHHHHHHHHHHHhccCccccc-ccCcHHHHHHHHHHHHHHHHHHhccch
Confidence            99999988877             33 678999999999999999999999973

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=97.23  E-value=0.0017  Score=64.85  Aligned_cols=43  Identities=26%  Similarity=0.384  Sum_probs=33.3

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      |..+.+.+.+.+......++++.|+.|||||++++++.+.+..
T Consensus         6 Q~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~   48 (364)
T PF05970_consen    6 QRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRS   48 (364)
T ss_pred             HHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcc
Confidence            4455666666666555556999999999999999999988754

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.23  E-value=0.0039  Score=64.15  Aligned_cols=119  Identities=15%  Similarity=0.204  Sum_probs=90.9

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCHH
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSAT  396 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~  396 (456)
                      +++..+.+.+.||+|+++|.|+.++... +..|+.+++.+.+|..+...+..+++   .++++++...+..|+..|.++.
T Consensus       199 eal~~Ia~~s~GdlR~aln~Le~l~~~~-~~~It~e~V~~~l~~~~~~~i~~li~si~~~d~~~Al~~l~~ll~~Gedp~  277 (472)
T PRK14962        199 EALSFIAKRASGGLRDALTMLEQVWKFS-EGKITLETVHEALGLIPIEVVRDYINAIFNGDVKRVFTVLDDVYYSGKDYE  277 (472)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhc-CCCCCHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHH
Confidence            4566777889999999999999876532 23588889999999998887777765   5899999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCH-HHHHHHHHHHHHHHhhhhcCCChhH
Q psy12150        397 QLFDQFHDIVMSASSLSD-KQKALILEKLAECNARLQDGASEYI  439 (456)
Q Consensus       397 di~~~l~~~~~~~~~~~~-~~~~~~~~~l~~~~~~l~~g~~~~~  439 (456)
                      .++..|..++...-.+.+ .....++..+.++-.++.---...+
T Consensus       278 ~i~r~l~~~~~edi~~a~~~~~~~~~~~~~~~~~~i~~~e~~~~  321 (472)
T PRK14962        278 VLIQQAIEDLVEDLERERANDIIQVSRQLLNILREIKFAEEKRL  321 (472)
T ss_pred             HHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHHHhCCcchHHH
Confidence            999999888775423334 5556677777777666554433333

>PRK14974 cell division protein FtsY; Provisional

Probab=97.21  E-value=0.0041  Score=61.01  Aligned_cols=25  Identities=36%  Similarity=0.487  Sum_probs=22.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      ++|.|++|+||||++..++..+...
T Consensus       143 i~~~G~~GvGKTTtiakLA~~l~~~  167 (336)
T PRK14974        143 IVFVGVNGTGKTTTIAKLAYYLKKN  167 (336)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            9999999999999999999877543

>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=97.19  E-value=0.01  Score=55.21  Aligned_cols=134  Identities=12%  Similarity=0.111  Sum_probs=70.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC---------------CcChHHHHHHHHHHHH---hhccCCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD---------------DRGIQVIRDKVKTFAQ---QTASGFN  129 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~---------------~~~~~~i~~~l~~~~~---~~~~~~~  129 (456)
                      .+++.|++|+|||+++..+...+.....  .++-+....               ....+.+...+...-.   ..... .
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~~~f~--~I~l~t~~~n~~~~~~i~p~~i~~~~~~e~le~~l~~~k~~I~k~~~k-~   91 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLRHKFD--HIFLITPEYNNEYYKYIWPDHIFKVFDKEELEYILIRQKEKIEKYIKK-S   91 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcccCC--EEEEEecCCchhhhhhcchhhccccccHHHHHHHHHHHHHHHHHHhhh-h
Confidence            3899999999999999999887654321  111111111               0011111111111111   11110 0


Q ss_pred             CCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-CcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHH
Q psy12150        130 QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-KSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQ  206 (456)
Q Consensus       130 ~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~  206 (456)
                      ...+ ...+-+||+||+..- .-....+..++.... -++-+|+.+.....+.+.++.....+-+-..+..++..+++
T Consensus        92 ~~~k-~~~~~LiIlDD~~~~-~~k~~~l~~~~~~gRH~~is~i~l~Q~~~~lp~~iR~n~~y~i~~~~s~~dl~~i~~  167 (241)
T PF04665_consen   92 PQKK-NNPRFLIILDDLGDK-KLKSKILRQFFNNGRHYNISIIFLSQSYFHLPPNIRSNIDYFIIFNNSKRDLENIYR  167 (241)
T ss_pred             cccC-CCCCeEEEEeCCCCc-hhhhHHHHHHHhcccccceEEEEEeeecccCCHHHhhcceEEEEecCcHHHHHHHHH
Confidence            0111 124559999998641 112334556655432 24567778888888888888777744433456666544333

This is thought to be an ATPase involved in viral DNA packaging [].

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=97.18  E-value=0.011  Score=56.25  Aligned_cols=151  Identities=17%  Similarity=0.262  Sum_probs=88.8

Q ss_pred             ccccHHHHHHH---HHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHh
Q psy12150         47 VIEQQEVVSVL---KKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQ  123 (456)
Q Consensus        47 ivg~~~~~~~l---~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~  123 (456)
                      ++--+++++.+   .+.+...+ .|.++.|..|+||+++++..+--.     ...++++......+..+.++.++.+...
T Consensus        10 lVlf~~ai~hi~ri~RvL~~~~-Gh~LLvG~~GsGr~sl~rLaa~i~-----~~~~~~i~~~~~y~~~~f~~dLk~~~~~   83 (268)
T PF12780_consen   10 LVLFDEAIEHIARISRVLSQPR-GHALLVGVGGSGRQSLARLAAFIC-----GYEVFQIEITKGYSIKDFKEDLKKALQK   83 (268)
T ss_dssp             ----HHHHHHHHHHHHHHCSTT-EEEEEECTTTSCHHHHHHHHHHHT-----TEEEE-TTTSTTTHHHHHHHHHHHHHHH
T ss_pred             eeeHHHHHHHHHHHHHHHcCCC-CCeEEecCCCccHHHHHHHHHHHh-----ccceEEEEeeCCcCHHHHHHHHHHHHHH
Confidence            44445555444   44454322 469999999999999999766543     2366777766666777777777776655


Q ss_pred             hccCCCCCCCCCCCcEEEEEcCCCCccHHHH---------------------HH--------------------HHH-HH
Q psy12150        124 TASGFNQDGKPCPPFKIVILDEADSMTHAAQ---------------------AA--------------------LRR-TM  161 (456)
Q Consensus       124 ~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~---------------------~~--------------------Ll~-~l  161 (456)
                      ....    +    ..-+++++|.+-......                     +.                    +.+ ++
T Consensus        84 ag~~----~----~~~vfll~d~qi~~~~fLe~in~LL~sGeip~LF~~eE~~~i~~~l~~~~~~~~~~~~~~~~~~~F~  155 (268)
T PF12780_consen   84 AGIK----G----KPTVFLLTDSQIVDESFLEDINSLLSSGEIPNLFTKEELDNIISSLREEAKAEGISDSRESLYEFFI  155 (268)
T ss_dssp             HHCS---------S-EEEEEECCCSSSCHHHHHHHHHHHCSS-TTTS-TCHHHHHHHHHHHHHHHCT--SSHHHHHHHHH
T ss_pred             Hhcc----C----CCeEEEecCcccchHhHHHHHHHHHhCCCCCCCccHHHHHHHHHHhHHHHHHcCCCCchHHHHHHHH
Confidence            4222    1    233777787655432111                     11                    111 12


Q ss_pred             HhccCcceEEEEecCcc-------cccccccCCceEEEecCCCHHHHHHHHHHHHHH
Q psy12150        162 EKETKSTRFCLICNYVS-------CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ  211 (456)
Q Consensus       162 e~~~~~~~lIl~~~~~~-------kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~  211 (456)
                      ++...+.-+|++-++..       ...|+|.++|.+.-|.+.+.+.+...-...++.
T Consensus       156 ~rvr~nLHivl~~sp~~~~~r~~~~~fPaL~~~ctIdW~~~W~~eaL~~Va~~~l~~  212 (268)
T PF12780_consen  156 ERVRKNLHIVLCMSPVGPNFRDRCRSFPALVNCCTIDWFDPWPEEALLSVANKFLSD  212 (268)
T ss_dssp             HHHCCCEEEEEEESTTTTCCCHHHHHHCCHHHHSEEEEEES--HHHHHHHHHHHCCH
T ss_pred             HHHHhheeEEEEECCCCchHHHHHHhCcchhcccEEEeCCcCCHHHHHHHHHHHHHh
Confidence            22334555666554422       246888999999999999999998887766654

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=97.18  E-value=0.0037  Score=66.05  Aligned_cols=37  Identities=22%  Similarity=0.441  Sum_probs=28.7

Q ss_pred             CcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        137 PFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      +.++|||||+..+.......|++.+   +....+|++++.
T Consensus       259 ~~dvlIiDEaSMvd~~l~~~ll~al---~~~~rlIlvGD~  295 (586)
T TIGR01447       259 PLDVLVVDEASMVDLPLMAKLLKAL---PPNTKLILLGDK  295 (586)
T ss_pred             cccEEEEcccccCCHHHHHHHHHhc---CCCCEEEEECCh
Confidence            4579999999999887777776655   456778888864

This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.18  E-value=0.002  Score=65.45  Aligned_cols=104  Identities=17%  Similarity=0.211  Sum_probs=53.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc--CCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCC--CCCC-------CCCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF--GDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGF--NQDG-------KPCPP  137 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~--~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~--~~~~-------~~~~~  137 (456)
                      ++|.||+|+||||++..++..+.  ....  .+.-++....+. .. .+.+..+........  ....       ....+
T Consensus       224 i~~vGptGvGKTTt~~kLA~~~~~~~~g~--~V~li~~D~~r~-~a-~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~~  299 (424)
T PRK05703        224 VALVGPTGVGKTTTLAKLAARYALLYGKK--KVALITLDTYRI-GA-VEQLKTYAKIMGIPVEVVYDPKELAKALEQLRD  299 (424)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcCCC--eEEEEECCccHH-HH-HHHHHHHHHHhCCceEccCCHHhHHHHHHHhCC
Confidence            89999999999999999988764  2223  344444433221 11 122222211100000  0000       00125


Q ss_pred             cEEEEEcCCCCccH--HHHHHHHHHHHh--ccCcceEEEEecC
Q psy12150        138 FKIVILDEADSMTH--AAQAALRRTMEK--ETKSTRFCLICNY  176 (456)
Q Consensus       138 ~~iviIDE~d~l~~--~~~~~Ll~~le~--~~~~~~lIl~~~~  176 (456)
                      +++||||.+.....  ...+.|..+++.  .+..+.+|+.++.
T Consensus       300 ~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~  342 (424)
T PRK05703        300 CDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATT  342 (424)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCC
Confidence            67999999877543  344556666662  2234455555543

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.17  E-value=0.002  Score=61.31  Aligned_cols=34  Identities=21%  Similarity=0.251  Sum_probs=27.6

Q ss_pred             HHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         59 KCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        59 ~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ...+.+...++++.||+|+||||+.+.++..+..
T Consensus       104 ~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~~  137 (270)
T TIGR02858       104 YLVRNNRVLNTLIISPPQCGKTTLLRDLARILST  137 (270)
T ss_pred             HHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccCC
Confidence            3334555668999999999999999999988754

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.17  E-value=0.0035  Score=57.38  Aligned_cols=53  Identities=19%  Similarity=0.335  Sum_probs=35.1

Q ss_pred             HHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHH
Q psy12150         60 CLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (456)
Q Consensus        60 ~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~  115 (456)
                      .+.+|-++.  ++++||||+|||+++..++.......  ..+++++... .....+.+
T Consensus         4 ~l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g--~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237         4 LLGGGVERGTITQIYGPPGSGKTNICMILAVNAARQG--KKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             hhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCC--CeEEEEECCC-CCHHHHHH
Confidence            344554444  99999999999999999887764332  2567777754 23333433

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

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.16  E-value=0.0027  Score=55.13  Aligned_cols=41  Identities=15%  Similarity=0.213  Sum_probs=30.5

Q ss_pred             CcEEEEEcCCCCccHH---HHHHHHHHHHhccCcceEEEEecCc
Q psy12150        137 PFKIVILDEADSMTHA---AQAALRRTMEKETKSTRFCLICNYV  177 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~---~~~~Ll~~le~~~~~~~lIl~~~~~  177 (456)
                      .+++||+||+-....-   ..+.+++.+++.+..+-+|+++.+.
T Consensus        95 ~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~  138 (159)
T cd00561          95 EYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNA  138 (159)
T ss_pred             CCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCC
Confidence            6679999998654221   2456788888888888888888764

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.

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=97.15  E-value=0.0038  Score=67.85  Aligned_cols=120  Identities=18%  Similarity=0.179  Sum_probs=64.5

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH-------HHHHHH
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK-------VKTFAQ  122 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~-------l~~~~~  122 (456)
                      .+.....+......   +..+++|+||||||++++++.+.+........+. +-+........+.+.       +-.+..
T Consensus       325 ~~~Q~~Ai~~~~~~---~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~-l~ApTg~AA~~L~e~~g~~a~Tih~lL~  400 (720)
T TIGR01448       325 SEEQKQALDTAIQH---KVVILTGGPGTGKTTITRAIIELAEELGGLLPVG-LAAPTGRAAKRLGEVTGLTASTIHRLLG  400 (720)
T ss_pred             CHHHHHHHHHHHhC---CeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEE-EEeCchHHHHHHHHhcCCccccHHHHhh
Confidence            34444455555432   2489999999999999999988765422001222 222221111222211       111111


Q ss_pred             hhccCCCCC-CCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        123 QTASGFNQD-GKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       123 ~~~~~~~~~-~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      ......... .....+..+|||||+..+.......|++.+   +....+|++++.
T Consensus       401 ~~~~~~~~~~~~~~~~~~llIvDEaSMvd~~~~~~Ll~~~---~~~~rlilvGD~  452 (720)
T TIGR01448       401 YGPDTFRHNHLEDPIDCDLLIVDESSMMDTWLALSLLAAL---PDHARLLLVGDT  452 (720)
T ss_pred             ccCCccchhhhhccccCCEEEEeccccCCHHHHHHHHHhC---CCCCEEEEECcc
Confidence            111000000 000124569999999999888777777654   355778888763

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.

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.15  E-value=0.0017  Score=54.26  Aligned_cols=25  Identities=28%  Similarity=0.499  Sum_probs=21.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +++++||+|+|||+.+..++..+..
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~   26 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLD   26 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHh
Confidence            4799999999999999888877653

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>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=97.10  E-value=0.0013  Score=64.39  Aligned_cols=115  Identities=25%  Similarity=0.362  Sum_probs=67.6

Q ss_pred             HHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEE-eeCCCCcChHHHHHHHHHHHHhhccCCCCC
Q psy12150         54 VSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILE-LNASDDRGIQVIRDKVKTFAQQTASGFNQD  131 (456)
Q Consensus        54 ~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e-~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~  131 (456)
                      +..++.++++-...+ ++|||||.||||.++..+.+-+.+.     ++. +|..+.-....+                  
T Consensus       249 l~~lk~~Lkg~PKKnClvi~GPPdTGKS~F~~SLi~Fl~Gk-----ViSf~Ns~ShFWLqPL------------------  305 (432)
T PF00519_consen  249 LIALKQFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGK-----VISFVNSKSHFWLQPL------------------  305 (432)
T ss_dssp             HHHHHHHHHTBTTSSEEEEESSCCCSHHHHHHHHHHHHTSE-----EE-GGGTTSCGGGGGG------------------
T ss_pred             HHHHHHHHhCCCcccEEEEECCCCCchhHHHHHHHHHhCCE-----EEEecCCCCcccccch------------------
Confidence            467788888655555 9999999999999999999988653     332 344332221111                  


Q ss_pred             CCCCCCcEEEEEcCCCCccHHHHHH-HHHHHHhcc-------------CcceEEEEecCc---ccccccccCCceEEEec
Q psy12150        132 GKPCPPFKIVILDEADSMTHAAQAA-LRRTMEKET-------------KSTRFCLICNYV---SCIIQPLTSRCSKFRFK  194 (456)
Q Consensus       132 ~~~~~~~~iviIDE~d~l~~~~~~~-Ll~~le~~~-------------~~~~lIl~~~~~---~kl~~~l~~r~~~i~f~  194 (456)
                          .+.|+.++||+-.-.-.-.+. |+..++..+             .-+.+++++|..   ..-.+-|.+|...++|+
T Consensus       306 ----~d~Ki~llDDAT~~cW~Y~D~ylRNaLDGN~vsiD~KHkap~Qik~PPLlITsN~dv~~~~~~~YLhSRi~~f~F~  381 (432)
T PF00519_consen  306 ----ADAKIALLDDATYPCWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKKDDRWKYLHSRITCFEFP  381 (432)
T ss_dssp             ----CT-SSEEEEEE-HHHHHHHHHHTHHHHCTSEEEEEESSSEEEEEE---EEEEESS-TTTSCCCHHHCTTEEEEE--
T ss_pred             ----hcCcEEEEcCCcccHHHHHHHHHHhccCCCeeeeeccCCCceEeecCceEEecCCCCCcchhhhhhhheEEEEEcC
Confidence                255699999986543333333 445554321             113366677632   22345588999988885


Q ss_pred             C
Q psy12150        195 P  195 (456)
Q Consensus       195 ~  195 (456)
                      .
T Consensus       382 n  382 (432)
T PF00519_consen  382 N  382 (432)
T ss_dssp             S
T ss_pred             C
Confidence            4

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.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.09  E-value=0.0041  Score=61.98  Aligned_cols=49  Identities=24%  Similarity=0.458  Sum_probs=35.3

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        55 ~~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      ..|.+.+.+|-.+.  ++|+|+||+|||+++..++..+....  ..+++++..
T Consensus        69 ~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g--~~VlYvs~E  119 (372)
T cd01121          69 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG--GKVLYVSGE  119 (372)
T ss_pred             HHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcC--CeEEEEECC
Confidence            55666666665554  99999999999999999988764432  245666554

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.08  E-value=0.0096  Score=53.14  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=21.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +++.|+||+||||+++.+++.++
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~   24 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFG   24 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            68999999999999999999863

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.

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.08  E-value=0.0072  Score=53.38  Aligned_cols=54  Identities=11%  Similarity=0.150  Sum_probs=33.9

Q ss_pred             cEEEEEcCC-CCccHHHHHHHHHHHHhccCc-ceEEEEecCcccccccccCCceEEE
Q psy12150        138 FKIVILDEA-DSMTHAAQAALRRTMEKETKS-TRFCLICNYVSCIIQPLTSRCSKFR  192 (456)
Q Consensus       138 ~~iviIDE~-d~l~~~~~~~Ll~~le~~~~~-~~lIl~~~~~~kl~~~l~~r~~~i~  192 (456)
                      ..+++-||. ..+.++....+++.+++.+.. +.++++ +....++.....|+..++
T Consensus       156 P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~A-THd~~lv~~~~~rvl~l~  211 (223)
T COG2884         156 PAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMA-THDLELVNRMRHRVLALE  211 (223)
T ss_pred             CCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEE-eccHHHHHhccCcEEEEe
Confidence            349999996 467777777888888875533 223333 344455566666655443

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.07  E-value=0.0012  Score=59.78  Aligned_cols=36  Identities=14%  Similarity=0.278  Sum_probs=21.8

Q ss_pred             cEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       138 ~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      ..+||+||++.+++.....+   +.+...++.+|++++.
T Consensus       120 ~~~iIvDEaQN~t~~~~k~i---lTR~g~~skii~~GD~  155 (205)
T PF02562_consen  120 NAFIIVDEAQNLTPEELKMI---LTRIGEGSKIIITGDP  155 (205)
T ss_dssp             SEEEEE-SGGG--HHHHHHH---HTTB-TT-EEEEEE--
T ss_pred             ceEEEEecccCCCHHHHHHH---HcccCCCcEEEEecCc
Confidence            46999999999998766555   4555567788888763

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=97.05  E-value=0.0081  Score=54.43  Aligned_cols=99  Identities=19%  Similarity=0.222  Sum_probs=61.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADS  148 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~  148 (456)
                      ++|.|+-|+|||++.+.|......+.       ++  .....+ ....+...                  -+|.+||++.
T Consensus        55 lvl~G~QG~GKStf~~~L~~~~~~d~-------~~--~~~~kd-~~~~l~~~------------------~iveldEl~~  106 (198)
T PF05272_consen   55 LVLVGKQGIGKSTFFRKLGPEYFSDS-------IN--DFDDKD-FLEQLQGK------------------WIVELDELDG  106 (198)
T ss_pred             eeEecCCcccHHHHHHHHhHHhccCc-------cc--cCCCcH-HHHHHHHh------------------HheeHHHHhh
Confidence            89999999999999999966532211       11  111111 11222211                  1899999999


Q ss_pred             ccHHHHHHHHHHHHh---------------ccCcceEEEEecCccccc-ccccCCceEEEecC
Q psy12150        149 MTHAAQAALRRTMEK---------------ETKSTRFCLICNYVSCII-QPLTSRCSKFRFKP  195 (456)
Q Consensus       149 l~~~~~~~Ll~~le~---------------~~~~~~lIl~~~~~~kl~-~~l~~r~~~i~f~~  195 (456)
                      +.+...+.|..++..               .+...+||.++|...-+. +.=-+|+..+++..
T Consensus       107 ~~k~~~~~lK~~iT~~~~~~R~pY~~~~~~~~R~~~figTtN~~~~L~D~TGnRRf~~v~v~~  169 (198)
T PF05272_consen  107 LSKKDVEALKSFITRRTDTYRPPYGRDPEEFPRRAVFIGTTNDDDFLKDPTGNRRFWPVEVSK  169 (198)
T ss_pred             cchhhHHHHHHHhcccceeeecCCcCcceeeceeEEEEeccCCcceeeCCCCCeEEEEEEEcC
Confidence            998888888777743               234466777777654332 23346666777765

>PRK13695 putative NTPase; Provisional

Probab=97.04  E-value=0.0099  Score=52.72  Aligned_cols=69  Identities=13%  Similarity=0.202  Sum_probs=41.8

Q ss_pred             cEEEEEcCCCCc---cHHHHHHHHHHHHhccCcceEEEEecCc--ccccccccCC--ceEEEecCCCHHHHHHHHHHHH
Q psy12150        138 FKIVILDEADSM---THAAQAALRRTMEKETKSTRFCLICNYV--SCIIQPLTSR--CSKFRFKPLAENTMLTRLQYIC  209 (456)
Q Consensus       138 ~~iviIDE~d~l---~~~~~~~Ll~~le~~~~~~~lIl~~~~~--~kl~~~l~~r--~~~i~f~~~~~~el~~~l~~~~  209 (456)
                      .+++++||+..+   .....+.+...++. .  ..+|++++..  ....+.+..+  +..+++.+-+.+++...+..+.
T Consensus        97 ~~~lllDE~~~~e~~~~~~~~~l~~~~~~-~--~~~i~v~h~~~~~~~~~~i~~~~~~~i~~~~~~~r~~~~~~~~~~~  172 (174)
T PRK13695         97 ADVIIIDEIGKMELKSPKFVKAVEEVLDS-E--KPVIATLHRRSVHPFVQEIKSRPGGRVYELTPENRDSLPFEILNRL  172 (174)
T ss_pred             CCEEEEECCCcchhhhHHHHHHHHHHHhC-C--CeEEEEECchhhHHHHHHHhccCCcEEEEEcchhhhhHHHHHHHHH
Confidence            459999997554   33345556666642 2  3455555542  2334445444  4588888888888877766544

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.03  E-value=0.004  Score=61.79  Aligned_cols=22  Identities=36%  Similarity=0.629  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.||+|+||||++..++..+
T Consensus       140 i~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        140 FALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            9999999999999999999875

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=97.02  E-value=0.0032  Score=66.71  Aligned_cols=105  Identities=17%  Similarity=0.205  Sum_probs=58.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCc-cccceEEeeCCCCcChHHHHHHHHHHH-----------------Hh-h-ccCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDM-YRERILELNASDDRGIQVIRDKVKTFA-----------------QQ-T-ASGF  128 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~-~~~~~~e~n~~~~~~~~~i~~~l~~~~-----------------~~-~-~~~~  128 (456)
                      .+|+|+|||||||++..+...+.... .....+.+-+........+.+.+....                 .+ . ..+.
T Consensus       170 ~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~TiHrlLg~  249 (615)
T PRK10875        170 SVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEASTLHRLLGA  249 (615)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHHHHHHhCc
Confidence            89999999999999999887763210 011123333333222222333222100                 00 0 0011


Q ss_pred             CCCC-------CCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        129 NQDG-------KPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       129 ~~~~-------~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      .+..       ...-+.++|||||+..+.-.....|++.+   ++.+.+|++++.
T Consensus       250 ~~~~~~~~~~~~~~l~~dvlIvDEaSMvd~~lm~~ll~al---~~~~rlIlvGD~  301 (615)
T PRK10875        250 QPGSQRLRYHAGNPLHLDVLVVDEASMVDLPMMARLIDAL---PPHARVIFLGDR  301 (615)
T ss_pred             CCCccchhhccccCCCCCeEEEChHhcccHHHHHHHHHhc---ccCCEEEEecch
Confidence            1100       00113469999999998877777777665   456788888864

>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=97.01  E-value=0.005  Score=55.05  Aligned_cols=23  Identities=35%  Similarity=0.414  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++++||||+|||+++..++....
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~   24 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGL   24 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            68999999999999998877653

A related protein is found in archaea.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.01  E-value=0.0057  Score=53.79  Aligned_cols=41  Identities=10%  Similarity=0.137  Sum_probs=29.4

Q ss_pred             CcEEEEEcCCCCccHH---HHHHHHHHHHhccCcceEEEEecCc
Q psy12150        137 PFKIVILDEADSMTHA---AQAALRRTMEKETKSTRFCLICNYV  177 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~---~~~~Ll~~le~~~~~~~lIl~~~~~  177 (456)
                      .+.+||+||+-....-   ..+.+++.|++.++.+-+|++....
T Consensus        97 ~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        97 ELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             CCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence            6679999998633211   1345778888888888899998754

Alternate name: corrinoid adenosyltransferase.

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=96.99  E-value=0.0016  Score=70.89  Aligned_cols=114  Identities=15%  Similarity=0.232  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHH-------HHHHHHHh
Q psy12150         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD-------KVKTFAQQ  123 (456)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~-------~l~~~~~~  123 (456)
                      +.....+...+.+.  ..++|.|+||||||++++++...+.....  .+.-+-.+. .....+.+       .+..+...
T Consensus       355 ~~Q~~Av~~i~~s~--~~~il~G~aGTGKTtll~~i~~~~~~~g~--~V~~~ApTg-~Aa~~L~~~~g~~a~Ti~~~~~~  429 (744)
T TIGR02768       355 EEQYEAVRHVTGSG--DIAVVVGRAGTGKSTMLKAAREAWEAAGY--RVIGAALSG-KAAEGLQAESGIESRTLASLEYA  429 (744)
T ss_pred             HHHHHHHHHHhcCC--CEEEEEecCCCCHHHHHHHHHHHHHhCCC--eEEEEeCcH-HHHHHHHhccCCceeeHHHHHhh
Confidence            44455555555432  24899999999999999999877654322  233322211 11111111       01111100


Q ss_pred             hccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEec
Q psy12150        124 TASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN  175 (456)
Q Consensus       124 ~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~  175 (456)
                      .    ........+..+|||||+..+.......|++....  ....+|++++
T Consensus       430 ~----~~~~~~~~~~~llIvDEasMv~~~~~~~Ll~~~~~--~~~kliLVGD  475 (744)
T TIGR02768       430 W----ANGRDLLSDKDVLVIDEAGMVGSRQMARVLKEAEE--AGAKVVLVGD  475 (744)
T ss_pred             h----ccCcccCCCCcEEEEECcccCCHHHHHHHHHHHHh--cCCEEEEECC
Confidence            0    00011113567999999999998887777775543  3466777775

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.99  E-value=0.0066  Score=61.71  Aligned_cols=27  Identities=22%  Similarity=0.299  Sum_probs=23.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      ++|+|++|+||||++..++..+....+
T Consensus        98 I~lvG~~GsGKTTtaakLA~~L~~~g~  124 (437)
T PRK00771         98 IMLVGLQGSGKTTTAAKLARYFKKKGL  124 (437)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHcCC
Confidence            999999999999999999988765444

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.97  E-value=0.0092  Score=55.67  Aligned_cols=35  Identities=26%  Similarity=0.183  Sum_probs=26.8

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHh
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .|-+.+.+|-++.  ++++|+||+|||+++..++...
T Consensus        13 ~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~   49 (234)
T PRK06067         13 ELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGA   49 (234)
T ss_pred             HHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            4555555665444  9999999999999999987653

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=96.96  E-value=0.0023  Score=71.07  Aligned_cols=115  Identities=15%  Similarity=0.167  Sum_probs=63.4

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHH-------HHHHHHHHh
Q psy12150         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIR-------DKVKTFAQQ  123 (456)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~-------~~l~~~~~~  123 (456)
                      +.....+...+.+..  .++|.|.+||||||+++.+...+....+  .++-+-.+. .-...+.       ..+..+...
T Consensus       349 ~eQr~Av~~il~s~~--v~vv~G~AGTGKTT~l~~~~~~~e~~G~--~V~~~ApTG-kAA~~L~e~tGi~a~TI~sll~~  423 (988)
T PRK13889        349 GEQADALAHVTDGRD--LGVVVGYAGTGKSAMLGVAREAWEAAGY--EVRGAALSG-IAAENLEGGSGIASRTIASLEHG  423 (988)
T ss_pred             HHHHHHHHHHhcCCC--eEEEEeCCCCCHHHHHHHHHHHHHHcCC--eEEEecCcH-HHHHHHhhccCcchhhHHHHHhh
Confidence            344455555554332  4789999999999999888776543222  233221111 1011111       112222111


Q ss_pred             hccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        124 TASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       124 ~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      .    ........+..+|||||+..+.......|++.....  ...+|++++.
T Consensus       424 ~----~~~~~~l~~~~vlIVDEASMv~~~~m~~LL~~a~~~--garvVLVGD~  470 (988)
T PRK13889        424 W----GQGRDLLTSRDVLVIDEAGMVGTRQLERVLSHAADA--GAKVVLVGDP  470 (988)
T ss_pred             h----cccccccccCcEEEEECcccCCHHHHHHHHHhhhhC--CCEEEEECCH
Confidence            0    000011125569999999999988888887766543  4677777753

>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=96.95  E-value=0.00067  Score=56.14  Aligned_cols=23  Identities=30%  Similarity=0.602  Sum_probs=21.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.|+||+||||+++.+++.++
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~   24 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLG   24 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            68999999999999999999873

...

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.95  E-value=0.0069  Score=54.11  Aligned_cols=41  Identities=10%  Similarity=0.151  Sum_probs=30.4

Q ss_pred             CcEEEEEcCCCCccHH---HHHHHHHHHHhccCcceEEEEecCc
Q psy12150        137 PFKIVILDEADSMTHA---AQAALRRTMEKETKSTRFCLICNYV  177 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~---~~~~Ll~~le~~~~~~~lIl~~~~~  177 (456)
                      .+.+||+||+-....-   ..+.+++.|++.++.+-+|++..+.
T Consensus       115 ~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986        115 SYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             CCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence            6779999998544321   2456788888888888899998754

>KOG0481|consensus

Probab=96.94  E-value=0.033  Score=56.17  Aligned_cols=109  Identities=17%  Similarity=0.216  Sum_probs=58.2

Q ss_pred             cccccHHHHHHHHHHHhcCC------------CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC--CCCcChH
Q psy12150         46 DVIEQQEVVSVLKKCLSGAD------------LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA--SDDRGIQ  111 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~~------------~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~--~~~~~~~  111 (456)
                      .+.|++++++.+.=.+-+|.            --|+||-|.||+.|+.+.+-+-+..     ++. ++-++  +...+..
T Consensus       332 SIfG~~DiKkAiaClLFgGsrK~LpDg~~lRGDINVLLLGDPgtAKSQlLKFvEkvs-----PIa-VYTSGKGSSAAGLT  405 (729)
T KOG0481|consen  332 SIFGHEDIKKAIACLLFGGSRKRLPDGVTLRGDINVLLLGDPGTAKSQLLKFVEKVS-----PIA-VYTSGKGSSAAGLT  405 (729)
T ss_pred             hhcCchhHHHHHHHHhhcCccccCCCcceeccceeEEEecCCchhHHHHHHHHHhcC-----ceE-EEecCCCcccccce
Confidence            46788888777765553332            1149999999999999988766531     111 11111  1111100


Q ss_pred             HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHh
Q psy12150        112 VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEK  163 (456)
Q Consensus       112 ~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~  163 (456)
                        ...+++-. ...+......-..++..||+|||+|.|..+..-++.+.||.
T Consensus       406 --ASV~RD~~-tReFylEGGAMVLADgGVvCIDEFDKMre~DRVAIHEAMEQ  454 (729)
T KOG0481|consen  406 --ASVIRDPS-TREFYLEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQ  454 (729)
T ss_pred             --eeEEecCC-cceEEEecceEEEecCCEEEeehhhccCchhhhHHHHHHHh
Confidence              00000000 00000000000014556999999999998887777777765

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.93  E-value=0.007  Score=62.01  Aligned_cols=51  Identities=24%  Similarity=0.500  Sum_probs=36.1

Q ss_pred             HHHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         54 VSVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        54 ~~~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      +..|.+.+.+|-++.  ++|+|+||+|||+++..++......  ...+++++..+
T Consensus        66 i~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~--g~~vlYvs~Ee  118 (446)
T PRK11823         66 IGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAA--GGKVLYVSGEE  118 (446)
T ss_pred             cHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEccc
Confidence            356666676665554  9999999999999999998876422  12556665543

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.90  E-value=0.0041  Score=59.05  Aligned_cols=42  Identities=14%  Similarity=0.015  Sum_probs=27.8

Q ss_pred             hcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         62 SGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        62 ~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      .+|-++.  ++++|+||+|||+++..++........  .+++++..
T Consensus        30 ~GGip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge--~vlyis~E   73 (259)
T TIGR03878        30 LGGIPAYSVINITGVSDTGKSLMVEQFAVTQASRGN--PVLFVTVE   73 (259)
T ss_pred             CCCeECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCC--cEEEEEec
Confidence            3444444  999999999999999988765433222  34444443

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=96.87  E-value=0.003  Score=67.31  Aligned_cols=131  Identities=18%  Similarity=0.221  Sum_probs=94.4

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCC--
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYS--  394 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s--  394 (456)
                      +++..+.+.+.|+||+++++|.+.... .+..|+.+.|+.++|.+....+.++++   ++++.+....+.+|..+|++  
T Consensus       201 eAL~lIA~~A~GsmRdALsLLdQAia~-~~~~It~~~V~~~LG~~d~~~i~~ll~aL~~~d~~~~l~~~~~l~~~g~~~~  279 (830)
T PRK07003        201 QALRLLARAAQGSMRDALSLTDQAIAY-SANEVTETAVSGMLGALDQTYMVRLLDALAAGDGPEILAVADEMALRSLSFS  279 (830)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHh-ccCCcCHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            456778899999999999997655432 233688888999999999998877775   58999999999999988887  


Q ss_pred             --HHHHHHHHHHHHhcC--------------------CCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        395 --ATQLFDQFHDIVMSA--------------------SSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       395 --~~di~~~l~~~~~~~--------------------~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                        ..||+..||+.+...                    ..++.+.+..+++.+-.....|...-++++.+.-.+..+..+
T Consensus       280 ~~l~dLl~~l~~~~~~q~~~~~~~~~~~e~~~~~~~a~~~s~~~l~~~~qi~l~g~~el~~ap~~~~~~Em~llr~l~~  358 (830)
T PRK07003        280 TALQDLASLLHRIAWAQFAPASVLDEWPEAADLRRFAELLSPEQVQLFYQIATVGRGELGLAPDEYAGFTMTLLRMLAF  358 (830)
T ss_pred             HHHHHHHHHHHHHHHHHhCccccccccchHHHHHHHHHhCCHHHHHHHHHHHHhHHHHhhcCCCHHHHHHHHHHHHhcC
Confidence              456666666544421                    123444455566666666677777777777777766665543

>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=96.86  E-value=0.00074  Score=61.11  Aligned_cols=56  Identities=13%  Similarity=0.197  Sum_probs=32.2

Q ss_pred             EEEEEcCCCCccHHHH------HHHHHHHHhcc-CcceEEEEecCcccccccccCCce-EEEec
Q psy12150        139 KIVILDEADSMTHAAQ------AALRRTMEKET-KSTRFCLICNYVSCIIQPLTSRCS-KFRFK  194 (456)
Q Consensus       139 ~iviIDE~d~l~~~~~------~~Ll~~le~~~-~~~~lIl~~~~~~kl~~~l~~r~~-~i~f~  194 (456)
                      .++||||++...+...      ....+++.... ...-+++++..+..+.+.++..+. .+++.
T Consensus        81 ~liviDEa~~~~~~r~~~~~~~~~~~~~l~~hRh~g~diiliTQ~~~~id~~ir~lve~~~~~~  144 (193)
T PF05707_consen   81 SLIVIDEAQNFFPSRSWKGKKVPEIIEFLAQHRHYGWDIILITQSPSQIDKFIRDLVEYHYHCR  144 (193)
T ss_dssp             -EEEETTGGGTSB---T-T----HHHHGGGGCCCTT-EEEEEES-GGGB-HHHHCCEEEEEEEE
T ss_pred             cEEEEECChhhcCCCccccccchHHHHHHHHhCcCCcEEEEEeCCHHHHhHHHHHHHheEEEEE
Confidence            4999999997644321      23335554433 345688888888888888776655 34443

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.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=96.84  E-value=0.0074  Score=56.91  Aligned_cols=24  Identities=25%  Similarity=0.436  Sum_probs=21.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.|.||+||||+++.+++.+..
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~   25 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSE   25 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            689999999999999999998754

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.83  E-value=0.006  Score=60.22  Aligned_cols=24  Identities=33%  Similarity=0.538  Sum_probs=21.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.||.|+||||++..++..+..
T Consensus       209 i~lvGptGvGKTTt~akLA~~l~~  232 (407)
T PRK12726        209 ISLIGQTGVGKTTTLVKLGWQLLK  232 (407)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            899999999999999999987643

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=96.83  E-value=0.022  Score=51.84  Aligned_cols=37  Identities=30%  Similarity=0.331  Sum_probs=28.7

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         57 LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        57 l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      +.+.+-+...-+.|+.||||+||||+.+-+++-+..+
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~g  164 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDG  164 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHhhcc
Confidence            4455544445568999999999999999999987653

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=96.82  E-value=0.027  Score=56.60  Aligned_cols=90  Identities=18%  Similarity=0.286  Sum_probs=57.3

Q ss_pred             EEEEEcCCCCccH--------HHHHHHHHHHHhc----cCcceEEEEecC------cc--cccccccCC-----------
Q psy12150        139 KIVILDEADSMTH--------AAQAALRRTMEKE----TKSTRFCLICNY------VS--CIIQPLTSR-----------  187 (456)
Q Consensus       139 ~iviIDE~d~l~~--------~~~~~Ll~~le~~----~~~~~lIl~~~~------~~--kl~~~l~~r-----------  187 (456)
                      =+|++||+..+-.        ...+.|++++++.    .+.+.+++++++      +.  .-+++|.+|           
T Consensus       241 LlI~lDE~e~l~kl~~~~~R~~~ye~lr~lidd~~~G~~~gL~~~~~gTPef~eD~rrGv~sY~AL~~RL~~~~~~~~~~  320 (416)
T PF10923_consen  241 LLILLDELENLYKLRNDQAREKNYEALRQLIDDIDQGRAPGLYFVFAGTPEFFEDGRRGVYSYEALAQRLAEEFFADDGF  320 (416)
T ss_pred             eEEEEechHHHHhcCChHHHHHHHHHHHHHHHHHhcCCCCceEEEEeeCHHHhhCccccccccHHHHHHHhccccccccc
Confidence            3899999987632        2456777777652    245667776652      11  113444433           


Q ss_pred             ----ceEEEecCCCHHHHHHHHHHHHHH------cCCCCCHHHHHHHHHHc
Q psy12150        188 ----CSKFRFKPLAENTMLTRLQYICEQ------ESVMCDFKALETLVETS  228 (456)
Q Consensus       188 ----~~~i~f~~~~~~el~~~l~~~~~~------~~~~i~~~~l~~L~~~s  228 (456)
                          ..++.+.+++.+++...+.++..-      ....++++.+..+++.+
T Consensus       321 ~n~~~pvIrL~~l~~eel~~l~~klr~i~a~~~~~~~~v~d~~l~~~~~~~  371 (416)
T PF10923_consen  321 DNLRAPVIRLQPLTPEELLELLEKLRDIYAEAYGYESRVDDEELKAFAQHV  371 (416)
T ss_pred             cCccCceecCCCCCHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHH
Confidence                227899999999998877766442      23467888887777654

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>TIGR02012 tigrfam_recA protein RecA

Probab=96.80  E-value=0.013  Score=57.07  Aligned_cols=36  Identities=28%  Similarity=0.368  Sum_probs=26.1

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         56 VLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        56 ~l~~~l~-~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .|...+. +|-++.  ++|+||||+|||+++..++....
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~   80 (321)
T TIGR02012        42 SLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQ   80 (321)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4455555 444443  99999999999999888776553

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.

>PF13479 AAA_24: AAA domain

Probab=96.80  E-value=0.0013  Score=60.41  Aligned_cols=19  Identities=47%  Similarity=0.968  Sum_probs=17.6

Q ss_pred             eEEEECCCCCcHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAA   86 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l   86 (456)
                      .++|||+||+|||+++..+
T Consensus         5 ~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    5 KILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             EEEEECCCCCCHHHHHHhC
Confidence            3999999999999999887

>cd01394 radB RadB

Probab=96.80  E-value=0.019  Score=52.90  Aligned_cols=49  Identities=29%  Similarity=0.433  Sum_probs=34.6

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      .|-..+.+|-++.  ++++|+||+|||+++..++.......  ..++.++...
T Consensus         7 ~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g--~~v~yi~~e~   57 (218)
T cd01394           7 GLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQG--KKVAYIDTEG   57 (218)
T ss_pred             HHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEECCC
Confidence            4555566555544  99999999999999999998764432  2566666543

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

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.78  E-value=0.0073  Score=60.54  Aligned_cols=22  Identities=32%  Similarity=0.712  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.||+|+||||++..++...
T Consensus       226 i~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        226 VFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8899999999999999999754

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

Probab=96.75  E-value=0.005  Score=53.05  Aligned_cols=22  Identities=27%  Similarity=0.468  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|+|+||+||||+++.+++.+
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhc
Confidence            6899999999999999999985

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

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.74  E-value=0.012  Score=54.84  Aligned_cols=22  Identities=23%  Similarity=0.214  Sum_probs=18.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||+++..++..+
T Consensus        27 ~~i~G~~G~GKTtl~~~~~~~~   48 (230)
T PRK08533         27 ILIEGDESTGKSILSQRLAYGF   48 (230)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            9999999999999986665554

>PRK08118 topology modulation protein; Reviewed

Probab=96.73  E-value=0.004  Score=54.88  Aligned_cols=26  Identities=19%  Similarity=0.281  Sum_probs=23.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      .+++.||+|+||||+++.+++.++.+
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~   28 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIP   28 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            48999999999999999999997654

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.72  E-value=0.013  Score=60.41  Aligned_cols=23  Identities=30%  Similarity=0.602  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.||.|+||||++..++..+.
T Consensus       353 IaLVGPtGvGKTTtaakLAa~la  375 (559)
T PRK12727        353 IALVGPTGAGKTTTIAKLAQRFA  375 (559)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            89999999999999999987653

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.71  E-value=0.018  Score=56.06  Aligned_cols=36  Identities=28%  Similarity=0.382  Sum_probs=26.4

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         56 VLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        56 ~l~~~l~-~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .|-..+. +|-++.  +.++||||+|||+++..++....
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~   80 (325)
T cd00983          42 SLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQ   80 (325)
T ss_pred             HHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4555555 444433  89999999999999998876543

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.70  E-value=0.075  Score=52.08  Aligned_cols=39  Identities=23%  Similarity=0.325  Sum_probs=32.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      +-|.|+||+||||++..+...+....++..++.++.+..
T Consensus        59 igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~Dp~s~   97 (332)
T PRK09435         59 IGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAVDPSST   97 (332)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeCCCcc
Confidence            999999999999999999998876556666677766654

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.69  E-value=0.012  Score=55.83  Aligned_cols=26  Identities=35%  Similarity=0.636  Sum_probs=22.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ..++|.|++|+|||+++..++..+..
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~  101 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHG  101 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            34999999999999999999887643

>KOG1051|consensus

Probab=96.67  E-value=0.02  Score=62.33  Aligned_cols=171  Identities=16%  Similarity=0.151  Sum_probs=104.2

Q ss_pred             ccccccc-HHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcccc-----ceEEeeCC----CCcChHHH
Q psy12150         44 IDDVIEQ-QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRE-----RILELNAS----DDRGIQVI  113 (456)
Q Consensus        44 ~~~ivg~-~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~-----~~~e~n~~----~~~~~~~i  113 (456)
                      ++-++|+ ++.++++.+.+.+....|-+|.|+||+|||.++.-+++.+..+..+.     .++.++..    .....+++
T Consensus       185 ldPvigr~deeirRvi~iL~Rrtk~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~aGa~~rge~  264 (898)
T KOG1051|consen  185 LDPVIGRHDEEIRRVIEILSRKTKNNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVAGAKRRGEF  264 (898)
T ss_pred             CCCccCCchHHHHHHHHHHhccCCCCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhcccCcccchHH
Confidence            5667887 77777777777665556689999999999999999999886543322     22233322    12334566


Q ss_pred             HHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH-------HHHHHHHHHhccCcceEEEEecC--c---cccc
Q psy12150        114 RDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA-------QAALRRTMEKETKSTRFCLICNY--V---SCII  181 (456)
Q Consensus       114 ~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~-------~~~Ll~~le~~~~~~~lIl~~~~--~---~kl~  181 (456)
                      .+.++.........        .+.-|+++||++.+....       ...+++.+..... +.+|-+++.  +   -.-.
T Consensus       265 E~rlk~l~k~v~~~--------~~gvILfigelh~lvg~g~~~~~~d~~nlLkp~L~rg~-l~~IGatT~e~Y~k~iekd  335 (898)
T KOG1051|consen  265 EERLKELLKEVESG--------GGGVILFLGELHWLVGSGSNYGAIDAANLLKPLLARGG-LWCIGATTLETYRKCIEKD  335 (898)
T ss_pred             HHHHHHHHHHHhcC--------CCcEEEEecceeeeecCCCcchHHHHHHhhHHHHhcCC-eEEEecccHHHHHHHHhhC
Confidence            67776666543211        133499999999885421       1223333332222 555554431  2   2246


Q ss_pred             ccccCCceEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHH
Q psy12150        182 QPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALET  223 (456)
Q Consensus       182 ~~l~~r~~~i~f~~~~~~el~~~l~~~~~~----~~~~i~~~~l~~  223 (456)
                      |++.+|++.+..+-|+.++...++.....+    .|..++++++..
T Consensus       336 PalErrw~l~~v~~pS~~~~~~iL~~l~~~~e~~hg~~~s~~a~~~  381 (898)
T KOG1051|consen  336 PALERRWQLVLVPIPSVENLSLILPGLSERYEVHHGVRISDESLFS  381 (898)
T ss_pred             cchhhCcceeEeccCcccchhhhhhhhhhhhccccCCccccccccc
Confidence            889999998888888877766665554443    344454444433

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=96.67  E-value=0.016  Score=51.22  Aligned_cols=35  Identities=29%  Similarity=0.312  Sum_probs=25.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      +++.|+||+|||+++..++..+.....  .+..+++.
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~--~v~~i~~D   37 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGK--KVLLVAAD   37 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC--cEEEEEcC
Confidence            689999999999999999987754322  34444443

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>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=96.66  E-value=0.017  Score=50.12  Aligned_cols=24  Identities=29%  Similarity=0.427  Sum_probs=21.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+.|.|+.|+|||++++.++..+.
T Consensus        27 ~~~i~G~nGsGKStll~~l~g~~~   50 (157)
T cd00267          27 IVALVGPNGSGKSTLLRAIAGLLK   50 (157)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            389999999999999999987653

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.

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain

Probab=96.66  E-value=0.039  Score=53.71  Aligned_cols=149  Identities=16%  Similarity=0.191  Sum_probs=77.0

Q ss_pred             CCCCCCCCCCCcchhccCCCCcccccc-cHHHHHHHHHHHh----c-CCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         23 STSGKTRNKPVPWVEKYRPKTIDDVIE-QQEVVSVLKKCLS----G-ADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        23 ~~~~~~~~~~~~w~eky~P~~~~~ivg-~~~~~~~l~~~l~----~-~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      ....++....+.|. +|    +.++.+ .+..+..+.+++.    . ..... ++++|+.|+|||++++.+..-++....
T Consensus        31 ~~~y~p~a~~p~~~-~~----L~~~~~~d~~~~~~l~~~lg~~L~~~~~~~~~~~l~G~g~nGKStl~~~l~~l~G~~~~  105 (304)
T TIGR01613        31 TTEYDPKADCPTWN-GF----LLETFGGDNELIEYLQRVIGYSLTGNYTEQKLFFLYGNGGNGKSTFQNLLSNLLGDYAT  105 (304)
T ss_pred             cCCCCCCCCCchHH-HH----HHHHhCCCHHHHHHHHHHHhHHhcCCCCceEEEEEECCCCCcHHHHHHHHHHHhChhhc
Confidence            33444444444443 33    455555 3445666666652    2 22223 999999999999999988765533211


Q ss_pred             ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHh------------
Q psy12150         96 RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEK------------  163 (456)
Q Consensus        96 ~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~------------  163 (456)
                           ....+.  ......+  ..+....          ..+++++++||++.-.....+.|..+...            
T Consensus       106 -----~~~~~~--~~~~~~~--~~f~~a~----------l~gk~l~~~~E~~~~~~~~~~~lK~lt~gd~i~~~~k~k~~  166 (304)
T TIGR01613       106 -----TAVASL--KMNEFQE--HRFGLAR----------LEGKRAVIGDEVQKGYRDDESTFKSLTGGDTITARFKNKDP  166 (304)
T ss_pred             -----cCCcch--hhhhccC--CCchhhh----------hcCCEEEEecCCCCCccccHHhhhhhhcCCeEEeecccCCc
Confidence                 000000  0000000  0000000          02567999999874221122233333211            


Q ss_pred             --ccCcceEEEEecCcccc---cccccCCceEEEecC
Q psy12150        164 --ETKSTRFCLICNYVSCI---IQPLTSRCSKFRFKP  195 (456)
Q Consensus       164 --~~~~~~lIl~~~~~~kl---~~~l~~r~~~i~f~~  195 (456)
                        ......+|+++|....+   ..++.+|..++.|..
T Consensus       167 ~~~~~~~~~i~~tN~~P~~~~~~~a~~RR~~vi~f~~  203 (304)
T TIGR01613       167 FEFTPKFTLVQSTNHLPRIRGFDGGIKRRLRIIPFTK  203 (304)
T ss_pred             EEEEEeeEEEEEcCCCCccCCCChhheeeEEEEeccC
Confidence              11245688888876554   457889998888853

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.

>TIGR00416 sms DNA repair protein RadA

Probab=96.63  E-value=0.019  Score=58.92  Aligned_cols=51  Identities=25%  Similarity=0.490  Sum_probs=36.6

Q ss_pred             HHHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         54 VSVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        54 ~~~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      +..|.+.+.+|-.+.  ++++|+||+|||+++..++..+....  ..+++++..+
T Consensus        80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g--~kvlYvs~EE  132 (454)
T TIGR00416        80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQ--MKVLYVSGEE  132 (454)
T ss_pred             cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcC--CcEEEEECcC
Confidence            456667776665555  99999999999999999987764432  2456665543

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)).

>KOG4658|consensus

Probab=96.63  E-value=0.022  Score=63.07  Aligned_cols=187  Identities=11%  Similarity=0.028  Sum_probs=98.8

Q ss_pred             cccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccce-EEeeCCCCcChHHHHHHHHHHHHhhcc
Q psy12150         48 IEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERI-LELNASDDRGIQVIRDKVKTFAQQTAS  126 (456)
Q Consensus        48 vg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~-~e~n~~~~~~~~~i~~~l~~~~~~~~~  126 (456)
                      +|++..++.+.+.+-......+-+||..|+||||+++.+.+....-...++. +=+..+.......+...+..-......
T Consensus       161 VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~  240 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDE  240 (889)
T ss_pred             ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCc
Confidence            9999999999999987766669999999999999999999876411111111 111112112222222221110000000


Q ss_pred             CCCCC---C-------CCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc----CcceEEEEecCcccccccccCCceEEE
Q psy12150        127 GFNQD---G-------KPCPPFKIVILDEADSMTHAAQAALRRTMEKET----KSTRFCLICNYVSCIIQPLTSRCSKFR  192 (456)
Q Consensus       127 ~~~~~---~-------~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~----~~~~lIl~~~~~~kl~~~l~~r~~~i~  192 (456)
                      .....   .       .-...+-++++||+-.  +..    .+.+.-+.    ....+++|+.... +-.....+...++
T Consensus       241 ~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~--~~d----w~~I~~~~p~~~~g~KvvlTTRs~~-V~~~~m~~~~~~~  313 (889)
T KOG4658|consen  241 EWEDKEEDELASKLLNLLEGKRFLLVLDDIWE--EVD----WDKIGVPFPSRENGSKVVLTTRSEE-VCGRAMGVDYPIE  313 (889)
T ss_pred             ccchhhHHHHHHHHHHHhccCceEEEEecccc--ccc----HHhcCCCCCCccCCeEEEEEeccHh-hhhccccCCcccc
Confidence            00000   0       0001344899999843  222    22222211    2256777765432 1111122244567


Q ss_pred             ecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHHH
Q psy12150        193 FKPLAENTMLTRLQYICEQESVMC---DFKALETLVETSGGDMRRAITCLQSC  242 (456)
Q Consensus       193 f~~~~~~el~~~l~~~~~~~~~~i---~~~~l~~L~~~s~gdlr~~~~~L~~~  242 (456)
                      ..-+++++.-..+++.+-.....-   -++....+++.|+|-+ -|++.+-.+
T Consensus       314 v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLP-LAl~viG~~  365 (889)
T KOG4658|consen  314 VECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLP-LALNVLGGL  365 (889)
T ss_pred             ccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChH-HHHHHHHHH
Confidence            777888888777777664332211   2566677888888755 455555443

>PRK14532 adenylate kinase; Provisional

Probab=96.63  E-value=0.036  Score=49.69  Aligned_cols=24  Identities=21%  Similarity=0.505  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++++.|+||+||||+++.+++.++
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g   25 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERG   25 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            479999999999999999999864

>PF13245 AAA_19: Part of AAA domain

Probab=96.60  E-value=0.0034  Score=47.44  Aligned_cols=22  Identities=55%  Similarity=0.939  Sum_probs=16.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.||||+|||+++...+..+
T Consensus        13 ~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen   13 FVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6779999999996555554444

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=96.60  E-value=0.0062  Score=64.64  Aligned_cols=131  Identities=18%  Similarity=0.229  Sum_probs=98.7

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCHH
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSAT  396 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~  396 (456)
                      +++..+.+.+.|+||++++.|..+... +...|+.++|..++|......+-++++   ++++..+...+..|...|++..
T Consensus       201 eAL~~Ia~~A~GslRdAlnLLDqaia~-g~g~It~e~V~~lLG~~d~~~If~LldAL~~~d~~~al~~l~~L~~~G~d~~  279 (709)
T PRK08691        201 PALQLLGRAAAGSMRDALSLLDQAIAL-GSGKVAENDVRQMIGAVDKQYLYELLTGIINQDGAALLAKAQEMAACAVGFD  279 (709)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHh-cCCCcCHHHHHHHHcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            457778889999999999999665542 334688888999999998777777664   6899999999999999999999


Q ss_pred             HHHHHHHHHHhcC------------------------CCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        397 QLFDQFHDIVMSA------------------------SSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       397 di~~~l~~~~~~~------------------------~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      +++..|..++...                        ..++...+..++..+-.....|...-+.++-+.-.+..+..+
T Consensus       280 ~~l~~L~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~q~~l~~~~~l~~a~~~~~~~Em~llrl~~~  358 (709)
T PRK08691        280 NALGELAILLQQLALIQAVPSALAHDDPDSDILHRLAQTISGEQIQLYYQIAVHGKRDLSLAPDEYAGFMMTLLRMLAF  358 (709)
T ss_pred             HHHHHHHHHHHHHHHhhcCchhccccchHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhc
Confidence            9999985554432                        134555556666666667777777777777777666665543

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

Probab=96.59  E-value=0.011  Score=55.50  Aligned_cols=26  Identities=23%  Similarity=0.404  Sum_probs=23.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      .++|.||+|+|||++++.+++.+...
T Consensus        18 r~~I~G~~G~GKTTLlr~I~n~l~~~   43 (249)
T cd01128          18 RGLIVAPPKAGKTTLLQSIANAITKN   43 (249)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccccc
Confidence            48999999999999999999987554

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.59  E-value=0.016  Score=54.31  Aligned_cols=48  Identities=21%  Similarity=0.139  Sum_probs=31.7

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      .|-+.+.+|-++.  ++++||||+|||+++..++.+.....  ...+++...
T Consensus         9 ~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~g--e~~lyvs~e   58 (237)
T TIGR03877         9 GMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMG--EPGIYVALE   58 (237)
T ss_pred             hHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcC--CcEEEEEee
Confidence            4555566665555  99999999999999988765532221  245555543

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.

>PRK13826 Dtr system oriT relaxase; Provisional

Probab=96.59  E-value=0.0054  Score=68.58  Aligned_cols=100  Identities=18%  Similarity=0.267  Sum_probs=58.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHH-------HHHHHHHhhccCCCCCCCCCCCcEE
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD-------KVKTFAQQTASGFNQDGKPCPPFKI  140 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~-------~l~~~~~~~~~~~~~~~~~~~~~~i  140 (456)
                      ..++.|++||||||+++.+...+....+  .++-+-.+. .-...+.+       .+..+...    ......+.....+
T Consensus       399 ~~~v~G~AGTGKTt~l~~~~~~~e~~G~--~V~g~ApTg-kAA~~L~e~~Gi~a~TIas~ll~----~~~~~~~l~~~~v  471 (1102)
T PRK13826        399 IAAVVGRAGAGKTTMMKAAREAWEAAGY--RVVGGALAG-KAAEGLEKEAGIQSRTLSSWELR----WNQGRDQLDNKTV  471 (1102)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHcCC--eEEEEcCcH-HHHHHHHHhhCCCeeeHHHHHhh----hccCccCCCCCcE
Confidence            3899999999999999999887644322  333322211 11111111       11111100    0001112234569


Q ss_pred             EEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        141 VILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       141 viIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      |||||+..+.......|++..+..  ...+|++++.
T Consensus       472 lVIDEAsMv~~~~m~~Ll~~~~~~--garvVLVGD~  505 (1102)
T PRK13826        472 FVLDEAGMVASRQMALFVEAVTRA--GAKLVLVGDP  505 (1102)
T ss_pred             EEEECcccCCHHHHHHHHHHHHhc--CCEEEEECCH
Confidence            999999999998888888877643  3567777763

>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=96.58  E-value=0.028  Score=48.15  Aligned_cols=92  Identities=13%  Similarity=0.121  Sum_probs=51.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC------CCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEE
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS------DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVI  142 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~------~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~ivi  142 (456)
                      +.|.||.|+||||+++.++.......-  . +.++..      ..-+....+ ++.-.....           .+.++++
T Consensus        29 ~~i~G~nGsGKStLl~~l~G~~~~~~G--~-i~~~~~~~i~~~~~lS~G~~~-rv~laral~-----------~~p~ill   93 (144)
T cd03221          29 IGLVGRNGAGKSTLLKLIAGELEPDEG--I-VTWGSTVKIGYFEQLSGGEKM-RLALAKLLL-----------ENPNLLL   93 (144)
T ss_pred             EEEECCCCCCHHHHHHHHcCCCCCCce--E-EEECCeEEEEEEccCCHHHHH-HHHHHHHHh-----------cCCCEEE
Confidence            899999999999999999886432111  1 111110      001112222 111111111           1334999


Q ss_pred             EcCCC-CccHHHHHHHHHHHHhccCcceEEEEecCc
Q psy12150        143 LDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYV  177 (456)
Q Consensus       143 IDE~d-~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~  177 (456)
                      +||.. .+.......+.+++.+..  ..+++++++.
T Consensus        94 lDEP~~~LD~~~~~~l~~~l~~~~--~til~~th~~  127 (144)
T cd03221          94 LDEPTNHLDLESIEALEEALKEYP--GTVILVSHDR  127 (144)
T ss_pred             EeCCccCCCHHHHHHHHHHHHHcC--CEEEEEECCH
Confidence            99975 677777777877777653  3455565543

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.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.57  E-value=0.018  Score=53.71  Aligned_cols=60  Identities=13%  Similarity=0.114  Sum_probs=37.9

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCc----cccceEEeeCCCCcChHHHHHH
Q psy12150         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNASDDRGIQVIRDK  116 (456)
Q Consensus        57 l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~----~~~~~~e~n~~~~~~~~~i~~~  116 (456)
                      |-+.+.+|-++.  +.|+||||+|||+++..++.....+.    ....+++++..+......+.+.
T Consensus         8 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~   73 (235)
T cd01123           8 LDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQI   73 (235)
T ss_pred             hHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHH
Confidence            444455554444  99999999999999999986532211    1246777777664344444443

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 .

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.54  E-value=0.022  Score=55.59  Aligned_cols=25  Identities=32%  Similarity=0.445  Sum_probs=22.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      ++|.||+|+||||++..++..+...
T Consensus       117 i~lvGpnGsGKTTt~~kLA~~l~~~  141 (318)
T PRK10416        117 ILVVGVNGVGKTTTIGKLAHKYKAQ  141 (318)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhc
Confidence            8999999999999999999887543

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=96.53  E-value=0.0036  Score=58.24  Aligned_cols=21  Identities=24%  Similarity=0.501  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++++|+||+|||++++.+.+.
T Consensus         1 ~vv~G~pGsGKSt~i~~~~~~   21 (234)
T PF01443_consen    1 IVVHGVPGSGKSTLIKKLLKD   21 (234)
T ss_pred             CEEEcCCCCCHHHHHHHHHHh
Confidence            479999999999999999987

Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=96.52  E-value=0.017  Score=51.37  Aligned_cols=24  Identities=29%  Similarity=0.512  Sum_probs=18.1

Q ss_pred             CeEEEECCCCCcHHHHH-HHHHHHh
Q psy12150         67 PHFLFYGPPGTGKTSTM-IAACHQL   90 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a-~~l~~~l   90 (456)
                      .++++.|++|+|||+.+ ..+...+
T Consensus        25 ~~~~i~~~~GsGKT~~~~~~~~~~~   49 (201)
T smart00487       25 RDVILAAPTGSGKTLAALLPALEAL   49 (201)
T ss_pred             CcEEEECCCCCchhHHHHHHHHHHh
Confidence            46999999999999944 4444443

>PRK04328 hypothetical protein; Provisional

Probab=96.52  E-value=0.014  Score=54.97  Aligned_cols=48  Identities=19%  Similarity=0.077  Sum_probs=31.0

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      .|-+.+.+|-++.  ++++|+||+|||+++..++........  ..++++..
T Consensus        11 ~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge--~~lyis~e   60 (249)
T PRK04328         11 GMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGE--PGVYVALE   60 (249)
T ss_pred             hHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCC--cEEEEEee
Confidence            3445555655444  999999999999999887765322222  34555443

>PRK09354 recA recombinase A; Provisional

Probab=96.52  E-value=0.029  Score=55.16  Aligned_cols=35  Identities=29%  Similarity=0.405  Sum_probs=25.9

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCcHHHHHHHHHHHh
Q psy12150         56 VLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        56 ~l~~~l~-~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .|-..+. +|-+..  +.|+||+|+|||+++..++...
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~   84 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEA   84 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4555565 444433  8999999999999998877654

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

Probab=96.50  E-value=0.032  Score=51.56  Aligned_cols=60  Identities=13%  Similarity=0.136  Sum_probs=37.8

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCc----cccceEEeeCCCCcChHHHHH
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNASDDRGIQVIRD  115 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~----~~~~~~e~n~~~~~~~~~i~~  115 (456)
                      .|.+.+.+|-++.  +.|+|+||+|||+++..++.......    ....+++++.........+.+
T Consensus         7 ~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~~   72 (226)
T cd01393           7 ALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLVQ   72 (226)
T ss_pred             HHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHHH
Confidence            3444555554444  99999999999999999887653221    113567777765433333333

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.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.50  E-value=0.015  Score=50.92  Aligned_cols=23  Identities=22%  Similarity=0.290  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+.|.||.|+||||+.+.++...
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            38999999999999999998764

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=96.49  E-value=0.018  Score=53.58  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.|+||+|||+++..++....
T Consensus        67 ~LIaG~PG~GKT~lalqfa~~~a   89 (237)
T PRK05973         67 VLLGARPGHGKTLLGLELAVEAM   89 (237)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            99999999999999998877653

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=96.45  E-value=0.022  Score=50.33  Aligned_cols=24  Identities=21%  Similarity=0.084  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+++.|+||+|||+++..++..+.
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~   26 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSG   26 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcC
Confidence            379999999999999999998753

>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=96.44  E-value=0.019  Score=54.67  Aligned_cols=73  Identities=22%  Similarity=0.299  Sum_probs=38.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC-------C---CCcChHHHHHHHHHHHHhhccCCCCCCCCCC
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA-------S---DDRGIQVIRDKVKTFAQQTASGFNQDGKPCP  136 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~-------~---~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~  136 (456)
                      |-++|+|-||+|||++++.+.+.+....+  .+..++.       .   +......++..+.........          
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~~~--~v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~ls----------   69 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEKGK--EVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERALS----------   69 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHTT----EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHHT----------
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhcCC--EEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhhc----------
Confidence            45899999999999999999998765333  2222221       1   122233445555444443322          


Q ss_pred             CcEEEEEcCCCCccH
Q psy12150        137 PFKIVILDEADSMTH  151 (456)
Q Consensus       137 ~~~iviIDE~d~l~~  151 (456)
                      ...+||+|+...+.+
T Consensus        70 ~~~iVI~Dd~nYiKg   84 (270)
T PF08433_consen   70 KDTIVILDDNNYIKG   84 (270)
T ss_dssp             T-SEEEE-S---SHH
T ss_pred             cCeEEEEeCCchHHH
Confidence            224999999887754

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

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

Probab=96.43  E-value=0.0023  Score=54.50  Aligned_cols=23  Identities=30%  Similarity=0.631  Sum_probs=21.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +++.|+||+||||+++.+++.+.
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHST
T ss_pred             EEEECCCCCCHHHHHHHHHHHCC
Confidence            68999999999999999998764

...

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.43  E-value=0.021  Score=56.30  Aligned_cols=50  Identities=24%  Similarity=0.493  Sum_probs=39.5

Q ss_pred             HHHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         54 VSVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        54 ~~~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      +.++.+.+-+|-.+.  +|+-|.||.||||+.-.++..+....   .++++...+
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsGEE  130 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSGEE  130 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeCCc
Confidence            467777787777766  99999999999999999998886532   577776654

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.41  E-value=0.039  Score=51.10  Aligned_cols=48  Identities=23%  Similarity=0.438  Sum_probs=34.0

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      .|-+.+.+|-++.  ++++|+||+|||+++..++.......  ..++.++..
T Consensus        11 ~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~--~~v~yi~~e   60 (225)
T PRK09361         11 MLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNG--KKVIYIDTE   60 (225)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEECC
Confidence            3455555554444  89999999999999999987664332  356666665

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.41  E-value=0.0039  Score=57.60  Aligned_cols=38  Identities=37%  Similarity=0.555  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +...+.+..++....  -.++.||||||||+++..++..+
T Consensus         4 ~~Q~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    4 ESQREAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHh
Confidence            344555666665432  28999999999999888888776

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.41  E-value=0.013  Score=55.75  Aligned_cols=51  Identities=25%  Similarity=0.376  Sum_probs=37.9

Q ss_pred             CCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.+++++--.+...+.+++.+.... ..++|.|++|+||||+++++...+..
T Consensus        56 ~~~l~~lg~~~~~~~~l~~~~~~~~-GlilisG~tGSGKTT~l~all~~i~~  106 (264)
T cd01129          56 ILDLEKLGLKPENLEIFRKLLEKPH-GIILVTGPTGSGKTTTLYSALSELNT  106 (264)
T ss_pred             CCCHHHcCCCHHHHHHHHHHHhcCC-CEEEEECCCCCcHHHHHHHHHhhhCC
Confidence            3456666556666777777775432 24999999999999999999888754

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.

>PRK14527 adenylate kinase; Provisional

Probab=96.40  E-value=0.027  Score=50.74  Aligned_cols=25  Identities=32%  Similarity=0.530  Sum_probs=22.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      -++++||||+||||+++.+++.++.
T Consensus         8 ~i~i~G~pGsGKsT~a~~La~~~~~   32 (191)
T PRK14527          8 VVIFLGPPGAGKGTQAERLAQELGL   32 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3999999999999999999988754

>KOG3928|consensus

Probab=96.38  E-value=0.14  Score=50.59  Aligned_cols=98  Identities=9%  Similarity=0.035  Sum_probs=60.8

Q ss_pred             EEEEcCCCCccH--------------H---HHHHHHHHHHhccCcceEEEEecC--cc----c-----------cccc--
Q psy12150        140 IVILDEADSMTH--------------A---AQAALRRTMEKETKSTRFCLICNY--VS----C-----------IIQP--  183 (456)
Q Consensus       140 iviIDE~d~l~~--------------~---~~~~Ll~~le~~~~~~~lIl~~~~--~~----k-----------l~~~--  183 (456)
                      +|.||++..+..              .   -...+++++.+.....++|++.+.  ..    .           +.+.  
T Consensus       318 LvaID~~n~l~~~T~~k~~~~~~v~P~dl~li~~~~~~i~ndwt~g~vi~a~s~~~~~~a~~h~gv~~y~pr~llg~egf  397 (461)
T KOG3928|consen  318 LVAIDNFNSLFTVTAYKSEDNKPVTPLDLTLIHLLRDIISNDWTFGSVIMAISGVTTPSAFGHLGVAPYVPRKLLGEEGF  397 (461)
T ss_pred             EEEEcCcchheeeeeeeccccCcCCchhhhHHHHHHHHHhcccccceEEEEecccccchhccccccccCCchHhcCccch
Confidence            788999987753              1   134566777665555455555541  10    0           1111  


Q ss_pred             -ccCCceEEEecCCCHHHHHHHHHHHHHHcC--CC-CCHHHHHHHHHHcCCCHHHHHH
Q psy12150        184 -LTSRCSKFRFKPLAENTMLTRLQYICEQES--VM-CDFKALETLVETSGGDMRRAIT  237 (456)
Q Consensus       184 -l~~r~~~i~f~~~~~~el~~~l~~~~~~~~--~~-i~~~~l~~L~~~s~gdlr~~~~  237 (456)
                       .+..+..++..+++.+|..+++...+++.=  .+ ..++..+.+.-.++||++....
T Consensus       398 e~lqpf~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~Ee~~kql~fLSngNP~l~~~  455 (461)
T KOG3928|consen  398 EALQPFVPIEVENYTLDEFEALIDYYLQSNWLLKKVPGEENIKQLYFLSNGNPSLMER  455 (461)
T ss_pred             hhccCcCccccCCCCHHHHHHHHHHHHHhhHHHhhcCcccchhhhhhhcCCCHHHHHH
Confidence             123345788999999999998887766421  12 3477788899999999954433

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=96.38  E-value=0.15  Score=50.08  Aligned_cols=36  Identities=22%  Similarity=0.292  Sum_probs=27.6

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        55 ~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .-|..+++.+  .++++.|++|+||||+++++...+..
T Consensus       151 ~~L~~~v~~~--~nili~G~tgSGKTTll~aL~~~ip~  186 (332)
T PRK13900        151 EFLEHAVISK--KNIIISGGTSTGKTTFTNAALREIPA  186 (332)
T ss_pred             HHHHHHHHcC--CcEEEECCCCCCHHHHHHHHHhhCCC
Confidence            3444445543  36999999999999999999987753

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.37  E-value=0.018  Score=55.85  Aligned_cols=49  Identities=27%  Similarity=0.350  Sum_probs=36.1

Q ss_pred             CCCcccccc----cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         41 PKTIDDVIE----QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        41 P~~~~~ivg----~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.++++++.    .+.....|..+++.+  .++++.|++|+||||+++++.+.+.
T Consensus       105 ~~tl~~l~~~g~~~~~~~~~L~~~v~~~--~~ilI~G~tGSGKTTll~al~~~i~  157 (299)
T TIGR02782       105 VFTLDDYVEAGIMTAAQRDVLREAVLAR--KNILVVGGTGSGKTTLANALLAEIA  157 (299)
T ss_pred             CCCHHHHHhcCCCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHHhh
Confidence            345666652    234556677777643  3699999999999999999998874

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.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.37  E-value=0.031  Score=57.40  Aligned_cols=23  Identities=35%  Similarity=0.603  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||.|+||||++..++..+.
T Consensus       259 i~LvGpnGvGKTTTiaKLA~~~~  281 (484)
T PRK06995        259 FALMGPTGVGKTTTTAKLAARCV  281 (484)
T ss_pred             EEEECCCCccHHHHHHHHHHHHH
Confidence            89999999999999999998763

>PRK07261 topology modulation protein; Provisional

Probab=96.36  E-value=0.011  Score=52.41  Aligned_cols=25  Identities=16%  Similarity=0.210  Sum_probs=22.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      +++.|++|+||||+++.+++.++.+
T Consensus         3 i~i~G~~GsGKSTla~~l~~~~~~~   27 (171)
T PRK07261          3 IAIIGYSGSGKSTLARKLSQHYNCP   27 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCC
Confidence            7899999999999999999886543

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.35  E-value=0.012  Score=61.35  Aligned_cols=87  Identities=21%  Similarity=0.336  Sum_probs=69.5

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCHH
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSAT  396 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~  396 (456)
                      +++..+.+.+.|+||++++.|+.++.. ++..|+.++|.+++|.+++..+-++++   .++.+.+...++.+...|.+..
T Consensus       201 ~al~~ia~~s~GslR~al~lLdq~ia~-~~~~It~~~V~~~lg~~~~~~i~~ll~al~~~d~~~~l~~~~~l~~~g~~~~  279 (509)
T PRK14958        201 AALDLLARAANGSVRDALSLLDQSIAY-GNGKVLIADVKTMLGTIEPLLLFDILEALAAKAGDRLLGCVTRLVEQGVDFS  279 (509)
T ss_pred             HHHHHHHHHcCCcHHHHHHHHHHHHhc-CCCCcCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHH
Confidence            356677788999999999999665432 344689999999999999998888775   5889999999999999999974


Q ss_pred             ----HHHHHHHHHHh
Q psy12150        397 ----QLFDQFHDIVM  407 (456)
Q Consensus       397 ----di~~~l~~~~~  407 (456)
                          |++..+|+.+.
T Consensus       280 ~il~~l~~~~~~~~~  294 (509)
T PRK14958        280 NALADLLSLLHQIAI  294 (509)
T ss_pred             HHHHHHHHHHHHHHH
Confidence                66666666544

>PRK14528 adenylate kinase; Provisional

Probab=96.34  E-value=0.047  Score=49.01  Aligned_cols=25  Identities=36%  Similarity=0.802  Sum_probs=22.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ..+++.||||+||||+++.+++.++
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~~   26 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERLS   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3589999999999999999998864

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.34  E-value=0.013  Score=58.44  Aligned_cols=86  Identities=15%  Similarity=0.169  Sum_probs=71.7

Q ss_pred             HHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCHHH
Q psy12150        321 ALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSATQ  397 (456)
Q Consensus       321 ~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~d  397 (456)
                      ++..+...+.||+|++++.|+..+.. +...|+.++|.+.+|.+++..+-++++   .+++..+...++.+...|++..+
T Consensus       202 al~~ia~~s~G~~R~al~~l~~~~~~-~~~~It~~~v~~~l~~~~~~~i~~l~~ai~~~~~~~~~~~~~~l~~~g~~~~~  280 (363)
T PRK14961        202 ALKLIAYHAHGSMRDALNLLEHAINL-GKGNINIKNVTDMLGLLNEKQSFLLTDALLKKDSKKTMLLLNKISSIGIEWEN  280 (363)
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCCCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHH
Confidence            45566778899999999999877654 344688888999999999888877775   57899999999999999999999


Q ss_pred             HHHHHHHHHh
Q psy12150        398 LFDQFHDIVM  407 (456)
Q Consensus       398 i~~~l~~~~~  407 (456)
                      ++..|..++.
T Consensus       281 il~~l~~~~~  290 (363)
T PRK14961        281 ILIEMLRFLH  290 (363)
T ss_pred             HHHHHHHHHH
Confidence            9999976665

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

Probab=96.33  E-value=0.045  Score=59.36  Aligned_cols=128  Identities=14%  Similarity=0.089  Sum_probs=96.0

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCC---C--cc----cc------cchhcccCCCchHHHHHhh---hCChHHH
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGE---G--IV----NE------DVLEVTGVIPNPWIEKLLK---VDSFQVL  381 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~---~--~~----~~------~~~~~~g~~~~~~~~~~~~---~~~~~~~  381 (456)
                      +++..+.+.+.||+|+++|.|+.+.......   .  |+    .+      .+|...|.+....|..+++   .++.+++
T Consensus       198 eaL~~La~~s~GD~R~lln~Le~a~~~~~~~~~~~i~It~~~~~e~l~~~~~~ydk~gd~hyd~Isa~~ksirgsD~daA  277 (725)
T PRK13341        198 EAEKHLVDVANGDARSLLNALELAVESTPPDEDGLIDITLAIAEESIQQRAVLYDKEGDAHFDTISAFIKSLRGSDPDAA  277 (725)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHhcccCCCCceeccHHHHHHHHHHhhhhcccCCCCCHHHHHHHHHHHhcCCHHHH
Confidence            4567777888999999999999876432111   1  21    11      1355567766667777776   4889999


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHH
Q psy12150        382 EKYIEDLILEAYSATQLFDQFHDIVMSASSL--SDKQKALILEKLAECNARLQDGASEYIQILDLGSI  447 (456)
Q Consensus       382 ~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~--~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~  447 (456)
                      ...+..|++.|+++..|+..|..++.+.-.+  |...........|.-...|-+|...-.|...++|.
T Consensus       278 l~~la~ml~~Gedp~~I~Rrl~~~asEdigladp~al~~~~~~~~a~~~~g~pE~~~~laq~~~~la~  345 (725)
T PRK13341        278 LYWLARMVEAGEDPRFIFRRMLIAASEDVGLADPQALVVVEACAAAFERVGLPEGLYPLAQAALYLAT  345 (725)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHhCCcchhhHHHHHHHHHHc
Confidence            9899999999999999999999988863245  55666677777788888899999998888877764

>PRK06547 hypothetical protein; Provisional

Probab=96.33  E-value=0.0083  Score=53.12  Aligned_cols=32  Identities=28%  Similarity=0.269  Sum_probs=25.7

Q ss_pred             HhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         61 LSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        61 l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +..++...+++.|++|+|||++++.+++.+..
T Consensus        10 ~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~~~   41 (172)
T PRK06547         10 LCGGGMITVLIDGRSGSGKTTLAGALAARTGF   41 (172)
T ss_pred             hhcCCCEEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            44444444999999999999999999998654

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.29  E-value=0.045  Score=48.30  Aligned_cols=42  Identities=24%  Similarity=0.320  Sum_probs=28.2

Q ss_pred             CcEEEEEcCCC-CccHHHHHHHHHHHHhccCcceEEEEecCcc
Q psy12150        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (456)
Q Consensus       137 ~~~iviIDE~d-~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~  178 (456)
                      +.+++++||.- .|.......+.+++.+......+++++++..
T Consensus       114 ~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~  156 (171)
T cd03228         114 DPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLS  156 (171)
T ss_pred             CCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHH
Confidence            34599999975 6677777777777765444455666666554

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.

>PRK06696 uridine kinase; Validated

Probab=96.27  E-value=0.014  Score=54.05  Aligned_cols=43  Identities=12%  Similarity=0.136  Sum_probs=31.9

Q ss_pred             cHHHHHHHHHHHhc---CCCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         50 QQEVVSVLKKCLSG---ADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        50 ~~~~~~~l~~~l~~---~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +..++.+|.+.+..   +++.-+.+.|++|+||||+++.+++.+..
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~   48 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKK   48 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            34566666666642   22223999999999999999999999854

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.26  E-value=0.021  Score=54.49  Aligned_cols=27  Identities=33%  Similarity=0.444  Sum_probs=22.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      +.|.||+|+||||++..++..+.....
T Consensus        75 i~l~G~~G~GKTTt~akLA~~l~~~g~  101 (272)
T TIGR00064        75 ILFVGVNGVGKTTTIAKLANKLKKQGK  101 (272)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhcCC
Confidence            888899999999999999987754433

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.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.23  E-value=0.045  Score=50.26  Aligned_cols=21  Identities=19%  Similarity=0.368  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      .++|+||.|+|||++.+.++.
T Consensus        31 ~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          31 IMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             EEEEECCCCCChHHHHHHHHH
Confidence            489999999999999999884

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

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.21  E-value=0.029  Score=56.67  Aligned_cols=22  Identities=32%  Similarity=0.597  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||++..++..+
T Consensus       194 i~lvGpnG~GKTTtlakLA~~~  215 (420)
T PRK14721        194 YALIGPTGVGKTTTTAKLAARA  215 (420)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            9999999999999999998753

>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=96.21  E-value=0.004  Score=51.74  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.|++|+||||+++.+.+.+
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            5899999999999999999986

...

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.21  E-value=0.039  Score=51.04  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +-|.||+||||||+.+.++.-.
T Consensus        32 vsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          32 VAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8899999999999999998744

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.19  E-value=0.011  Score=59.90  Aligned_cols=55  Identities=24%  Similarity=0.233  Sum_probs=44.7

Q ss_pred             cCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         39 YRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        39 y~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      +...+++++...+.....+.+.++..  .. +|++||.|+||||+..++.+.++.+..
T Consensus       232 ~~~l~l~~Lg~~~~~~~~~~~~~~~p--~GliLvTGPTGSGKTTTLY~~L~~ln~~~~  287 (500)
T COG2804         232 QVILDLEKLGMSPFQLARLLRLLNRP--QGLILVTGPTGSGKTTTLYAALSELNTPER  287 (500)
T ss_pred             cccCCHHHhCCCHHHHHHHHHHHhCC--CeEEEEeCCCCCCHHHHHHHHHHHhcCCCc
Confidence            34567788877888888888888743  34 999999999999999999999987554

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.18  E-value=0.019  Score=58.08  Aligned_cols=25  Identities=28%  Similarity=0.382  Sum_probs=22.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      ++|.|++|+||||++..++..+...
T Consensus       103 i~lvG~~GvGKTTtaaKLA~~l~~~  127 (429)
T TIGR01425       103 IMFVGLQGSGKTTTCTKLAYYYQRK  127 (429)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC
Confidence            9999999999999999999877543

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=96.17  E-value=0.015  Score=57.65  Aligned_cols=26  Identities=23%  Similarity=0.359  Sum_probs=22.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      ..+|+||+|+|||++++.+++.+...
T Consensus       171 R~lIvgppGvGKTTLaK~Ian~I~~n  196 (416)
T PRK09376        171 RGLIVAPPKAGKTVLLQNIANSITTN  196 (416)
T ss_pred             eEEEeCCCCCChhHHHHHHHHHHHhh
Confidence            38999999999999999999987653

>cd04124 RabL2 RabL2 subfamily

Probab=96.14  E-value=0.034  Score=48.37  Aligned_cols=21  Identities=14%  Similarity=0.268  Sum_probs=18.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++..+...
T Consensus         3 i~vvG~~~vGKTsli~~~~~~   23 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMD   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988764

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>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=96.13  E-value=0.027  Score=50.22  Aligned_cols=22  Identities=27%  Similarity=0.460  Sum_probs=20.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        28 ~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214          28 VGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8999999999999999998764

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.

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=96.12  E-value=0.047  Score=53.01  Aligned_cols=25  Identities=32%  Similarity=0.551  Sum_probs=22.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+++.||+|+|||+++..+++.+++
T Consensus         6 ~i~i~GptgsGKt~la~~la~~~~~   30 (307)
T PRK00091          6 VIVIVGPTASGKTALAIELAKRLNG   30 (307)
T ss_pred             EEEEECCCCcCHHHHHHHHHHhCCC
Confidence            3899999999999999999998754

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

Probab=96.12  E-value=0.042  Score=48.02  Aligned_cols=28  Identities=32%  Similarity=0.492  Sum_probs=24.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      -+.|+|.+|+||||+|.++.+.|.....
T Consensus        25 viW~TGLSGsGKSTiA~ale~~L~~~G~   52 (197)
T COG0529          25 VIWFTGLSGSGKSTIANALEEKLFAKGY   52 (197)
T ss_pred             EEEeecCCCCCHHHHHHHHHHHHHHcCC
Confidence            3999999999999999999999876544

>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=96.11  E-value=0.0065  Score=44.91  Aligned_cols=22  Identities=27%  Similarity=0.431  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.+.|++|+|||++++.+++.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999987

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.

>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=96.11  E-value=0.026  Score=48.74  Aligned_cols=20  Identities=30%  Similarity=0.652  Sum_probs=18.8

Q ss_pred             EECCCCCcHHHHHHHHHHHh
Q psy12150         71 FYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        71 l~G~~G~GKT~~a~~l~~~l   90 (456)
                      |.||||+||||.++.+++.+
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            57999999999999999986

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 ....

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.11  E-value=0.0065  Score=53.55  Aligned_cols=25  Identities=20%  Similarity=0.191  Sum_probs=22.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .++|+|+||+|||++++.+++.++.
T Consensus         6 ~i~l~G~~GsGKstla~~La~~l~~   30 (175)
T PRK00131          6 NIVLIGFMGAGKSTIGRLLAKRLGY   30 (175)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            4999999999999999999999743

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.10  E-value=0.012  Score=49.47  Aligned_cols=24  Identities=29%  Similarity=0.270  Sum_probs=22.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.|+.|+|||++++.+++.+..
T Consensus        25 i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        25 VLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcCC
Confidence            899999999999999999998753

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.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.08  E-value=0.012  Score=56.64  Aligned_cols=23  Identities=30%  Similarity=0.603  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||+|+||||++..++..+.
T Consensus       197 i~~vGptGvGKTTt~~kLa~~~~  219 (282)
T TIGR03499       197 IALVGPTGVGKTTTLAKLAARFV  219 (282)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            89999999999999999998764

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.07  E-value=0.042  Score=53.25  Aligned_cols=22  Identities=27%  Similarity=0.369  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|+||+||||+++.+++.+
T Consensus         5 iil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          5 ILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHC
Confidence            8899999999999999999986

>KOG1808|consensus

Probab=96.07  E-value=0.006  Score=70.61  Aligned_cols=149  Identities=17%  Similarity=0.302  Sum_probs=92.0

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCC
Q psy12150         53 VVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG  132 (456)
Q Consensus        53 ~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~  132 (456)
                      ....+..+...+++ +++|-||.|+|||+.+..++++.+.     +++++|......   .++.+..+............
T Consensus       428 ~la~~~~a~~~~~~-pillqG~tssGKtsii~~la~~~g~-----~~vrinnhehtd---~qeyig~y~~~~~g~l~fre  498 (1856)
T KOG1808|consen  428 NLADLARAISSGKF-PILLQGPTSSGKTSIIKELARATGK-----NIVRINNHEHTD---LQEYIGTYVADDNGDLVFRE  498 (1856)
T ss_pred             HHHHHHHHHhcCCC-CeEEecCcCcCchhHHHHHHHHhcc-----Cceehhccccch---HHHHHHhhhcCCCCCeeeeh
Confidence            34555666666665 4999999999999999999999865     445554443322   23333322211110000000


Q ss_pred             CC----CCCcEEEEEcCCCCccHHHHHHHHHHHHhc-----cCcce--------EEEEecC-------cccccccccCCc
Q psy12150        133 KP----CPPFKIVILDEADSMTHAAQAALRRTMEKE-----TKSTR--------FCLICNY-------VSCIIQPLTSRC  188 (456)
Q Consensus       133 ~~----~~~~~iviIDE~d~l~~~~~~~Ll~~le~~-----~~~~~--------lIl~~~~-------~~kl~~~l~~r~  188 (456)
                      .+    ..+...+|+||+.....+..++|.+.+++.     +.+..        +++.+..       ++.+..++.+|+
T Consensus       499 g~LV~Alr~G~~~vlD~lnla~~dvL~aLnrllddnRel~ipe~~rlv~~h~~f~lfatqn~~~~y~grk~lsRa~~~rf  578 (1856)
T KOG1808|consen  499 GVLVQALRNGDWIVLDELNLAPHDVLEALNRLLDDNRELFIPETQRLVKAHPEFMLFATQNPPGTYGGRKILSRALRNRF  578 (1856)
T ss_pred             hHHHHHHHhCCEEEeccccccchHHHHHHHhhhhhhccccccccceeeccCcchhhhhhccCccccchhhhhhhcccccc
Confidence            00    012348999999999999999999998762     11111        1222222       133567788888


Q ss_pred             eEEEecCCCHHHHHHHHHHHHH
Q psy12150        189 SKFRFKPLAENTMLTRLQYICE  210 (456)
Q Consensus       189 ~~i~f~~~~~~el~~~l~~~~~  210 (456)
                      ..++|....++++..++..++.
T Consensus       579 ~e~~f~~~~e~e~~~i~~~~~~  600 (1856)
T KOG1808|consen  579 IELHFDDIGEEELEEILEHRCG  600 (1856)
T ss_pred             hhhhhhhcCchhhhhhhccccc
Confidence            8999999999988887776653

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.07  E-value=0.025  Score=49.88  Aligned_cols=21  Identities=19%  Similarity=0.226  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++..++..
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~   22 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE   22 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            589999999999999999876

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.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.03  E-value=0.035  Score=50.36  Aligned_cols=24  Identities=33%  Similarity=0.555  Sum_probs=21.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.||+|+||||++.+++..+..
T Consensus         4 ilI~GptGSGKTTll~~ll~~~~~   27 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYINK   27 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhh
Confidence            799999999999999999888753

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.

>PRK13947 shikimate kinase; Provisional

Probab=96.03  E-value=0.0072  Score=53.31  Aligned_cols=26  Identities=27%  Similarity=0.234  Sum_probs=23.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .++++.|+||+|||++++.+++.++.
T Consensus         2 ~~I~l~G~~GsGKst~a~~La~~lg~   27 (171)
T PRK13947          2 KNIVLIGFMGTGKTTVGKRVATTLSF   27 (171)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            36899999999999999999999854

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=96.02  E-value=0.16  Score=48.93  Aligned_cols=32  Identities=19%  Similarity=0.271  Sum_probs=25.6

Q ss_pred             HhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         61 LSGADLPH-FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        61 l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +...+.|- +++.|++|+|||+++..+++.++.
T Consensus        86 i~~~~~p~iIlI~G~sgsGKStlA~~La~~l~~  118 (301)
T PRK04220         86 IRKSKEPIIILIGGASGVGTSTIAFELASRLGI  118 (301)
T ss_pred             HhcCCCCEEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34434444 999999999999999999999843

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=96.02  E-value=0.056  Score=49.54  Aligned_cols=97  Identities=14%  Similarity=0.196  Sum_probs=54.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccc---------------eEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRER---------------ILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK  133 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~---------------~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  133 (456)
                      ++++|++|+|||+++.++.+..........               .+.+...|..+...++.....+...+         
T Consensus         8 ivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~---------   78 (219)
T COG1100           8 IVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGA---------   78 (219)
T ss_pred             EEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCC---------
Confidence            899999999999999999987655322111               11133335556666655544443332         


Q ss_pred             CCCCcEEEEEcCCC-CccHHHHHHHHHHHHhcc-CcceEEEEecCc
Q psy12150        134 PCPPFKIVILDEAD-SMTHAAQAALRRTMEKET-KSTRFCLICNYV  177 (456)
Q Consensus       134 ~~~~~~iviIDE~d-~l~~~~~~~Ll~~le~~~-~~~~lIl~~~~~  177 (456)
                         ..-+++.|... .-..+........+.... ....++++.|..
T Consensus        79 ---~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~  121 (219)
T COG1100          79 ---NGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKI  121 (219)
T ss_pred             ---CEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEeccc
Confidence               22266666655 223333344444443333 345666676643

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.01  E-value=0.094  Score=45.19  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +++.|+||+|||++++.++..+.
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            58999999999999999999874

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK06762 hypothetical protein; Provisional

Probab=96.00  E-value=0.007  Score=53.13  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=21.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|+|+||+||||+++.+++.+
T Consensus         5 i~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          5 IIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8999999999999999999987

>TIGR00767 rho transcription termination factor Rho

Probab=96.00  E-value=0.018  Score=57.35  Aligned_cols=25  Identities=24%  Similarity=0.360  Sum_probs=22.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      ++|.||+|+|||++++.+++.+...
T Consensus       171 ~~IvG~~g~GKTtL~~~i~~~I~~n  195 (415)
T TIGR00767       171 GLIVAPPKAGKTVLLQKIAQAITRN  195 (415)
T ss_pred             EEEECCCCCChhHHHHHHHHhhccc
Confidence            8999999999999999999987544

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

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=95.99  E-value=0.046  Score=57.15  Aligned_cols=39  Identities=21%  Similarity=0.279  Sum_probs=30.9

Q ss_pred             EEEEEcCC-CCccHHHHHHHHHHHHhccCcceEEEEecCc
Q psy12150        139 KIVILDEA-DSMTHAAQAALRRTMEKETKSTRFCLICNYV  177 (456)
Q Consensus       139 ~iviIDE~-d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~  177 (456)
                      +++|+||+ ..|.++....+.+.+.+.-+.+.+|.++..+
T Consensus       535 ~~v~LDEATsALDe~~e~~l~q~l~~~lp~~tvISV~Hr~  574 (604)
T COG4178         535 KWVFLDEATSALDEETEDRLYQLLKEELPDATVISVGHRP  574 (604)
T ss_pred             CEEEEecchhccChHHHHHHHHHHHhhCCCCEEEEeccch
Confidence            49999998 4677788889999998866677787777643

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=95.97  E-value=0.031  Score=53.52  Aligned_cols=24  Identities=25%  Similarity=0.483  Sum_probs=21.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +++.||+|+|||+++..+++.++.
T Consensus         2 i~i~G~t~~GKs~la~~l~~~~~~   25 (287)
T TIGR00174         2 IFIMGPTAVGKSQLAIQLAKKLNA   25 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCC
Confidence            689999999999999999998754

Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=95.96  E-value=0.11  Score=45.31  Aligned_cols=22  Identities=23%  Similarity=0.537  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||+++.++...
T Consensus         4 ki~i~G~~~vGKSsli~~~~~~   25 (166)
T cd01869           4 KLLLIGDSGVGKSCLLLRFADD   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3899999999999999998864

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>PRK07667 uridine kinase; Provisional

Probab=95.95  E-value=0.015  Score=52.56  Aligned_cols=27  Identities=15%  Similarity=0.091  Sum_probs=23.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      +.|.|++|+||||+++.+++.+.....
T Consensus        20 IgI~G~~gsGKStla~~L~~~l~~~~~   46 (193)
T PRK07667         20 LGIDGLSRSGKTTFVANLKENMKQEGI   46 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCC
Confidence            899999999999999999998865433

>PRK03839 putative kinase; Provisional

Probab=95.95  E-value=0.0066  Score=54.13  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=21.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.|+||+||||+++.+++.+.
T Consensus         3 I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          3 IAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999999974

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.94  E-value=0.026  Score=59.59  Aligned_cols=130  Identities=10%  Similarity=0.118  Sum_probs=99.5

Q ss_pred             HHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCHHH
Q psy12150        321 ALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSATQ  397 (456)
Q Consensus       321 ~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~d  397 (456)
                      ++..+.+.++||||+++|.|+.++...++..|+.+++..++|..+...+.++++   .++...+...+..+...|.+..+
T Consensus       201 al~~Ia~~s~GdlR~aln~Ldql~~~~~~~~It~~~v~~llg~~~~~~i~~lv~al~~~d~~~al~~l~~l~~~g~d~~~  280 (584)
T PRK14952        201 VYPLVIRAGGGSPRDTLSVLDQLLAGAADTHVTYQRALGLLGATDVALIDDAVDALAADDAAALFGAIESVIDAGHDPRR  280 (584)
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhccCCCCcCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHH
Confidence            455667889999999999999887544345688889999999988777777654   58899999999999999999988


Q ss_pred             HHHHHHHHHhcC-----------------------------CCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHH
Q psy12150        398 LFDQFHDIVMSA-----------------------------SSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIV  448 (456)
Q Consensus       398 i~~~l~~~~~~~-----------------------------~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~  448 (456)
                      ++..|..++...                             ..++...+.+++..+-+....+....+..+-+.-++..+
T Consensus       281 ~l~~L~~~~RdLll~k~~~~~~~~~l~~~~~~~~~~l~~qa~~~s~~~L~~~i~~l~~~~~~~~~~~~~rl~LE~llikl  360 (584)
T PRK14952        281 FATDLLERFRDLIVLQAVPDAAARGVVDAPEDVLERMREQAARIGLATLTRYAEVVQAGLGEMRGATAPRLLLEVVCARL  360 (584)
T ss_pred             HHHHHHHHHHHHHHHhhcchhhhcccccCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHH
Confidence            887774332211                             125566677778866666666777788888888888887


Q ss_pred             HH
Q psy12150        449 IK  450 (456)
Q Consensus       449 ~~  450 (456)
                      +.
T Consensus       361 ~~  362 (584)
T PRK14952        361 LL  362 (584)
T ss_pred             hc
Confidence            74

>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=95.93  E-value=0.04  Score=48.93  Aligned_cols=41  Identities=17%  Similarity=0.182  Sum_probs=26.2

Q ss_pred             cEEEEEcCCC-CccHHHHHHHHHHHHhcc-CcceEEEEecCcc
Q psy12150        138 FKIVILDEAD-SMTHAAQAALRRTMEKET-KSTRFCLICNYVS  178 (456)
Q Consensus       138 ~~iviIDE~d-~l~~~~~~~Ll~~le~~~-~~~~lIl~~~~~~  178 (456)
                      .+++++||.- .+.....+.+.+++.+.. ....+|+++.+..
T Consensus       108 p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~  150 (176)
T cd03238         108 GTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLD  150 (176)
T ss_pred             CCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            5699999974 566666666766665532 2344556666543

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.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=95.93  E-value=0.13  Score=44.34  Aligned_cols=21  Identities=19%  Similarity=0.265  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++..+...
T Consensus         3 v~~vG~~~~GKTsl~~~~~~~   23 (162)
T cd04106           3 VIVVGNGNVGKSSMIQRFVKG   23 (162)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999999864

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=95.93  E-value=0.084  Score=46.91  Aligned_cols=43  Identities=19%  Similarity=0.207  Sum_probs=28.7

Q ss_pred             CcEEEEEcCCC-CccHHHHHHHHHHHHhccCcceEEEEecCccc
Q psy12150        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSC  179 (456)
Q Consensus       137 ~~~iviIDE~d-~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~k  179 (456)
                      +.+++++||.- .|.....+.+.+.+.+......+|+++++...
T Consensus       116 ~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~  159 (178)
T cd03247         116 DAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTG  159 (178)
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHH
Confidence            44699999974 66777777777777654334556666665543

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.

>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=95.92  E-value=0.069  Score=47.50  Aligned_cols=22  Identities=41%  Similarity=0.555  Sum_probs=20.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        28 ~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          28 IGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            8999999999999999998754

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.

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=95.91  E-value=0.042  Score=48.06  Aligned_cols=21  Identities=33%  Similarity=0.496  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++..+...
T Consensus         2 i~ivG~~~vGKTsli~~~~~~   22 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSE   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999999865

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.91  E-value=0.15  Score=50.50  Aligned_cols=25  Identities=28%  Similarity=0.502  Sum_probs=22.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .++|.||+|+||||+++++...+..
T Consensus       124 ~ili~G~tGSGKTT~l~al~~~i~~  148 (343)
T TIGR01420       124 LILVTGPTGSGKSTTLASMIDYINK  148 (343)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCc
Confidence            4999999999999999999987753

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.

>PF13337 Lon_2: Putative ATP-dependent Lon protease

Probab=95.91  E-value=0.067  Score=53.89  Aligned_cols=90  Identities=16%  Similarity=0.212  Sum_probs=49.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD  147 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d  147 (456)
                      |++=-||.|||||++-+.+-..         ..-+++...+.    ...+-+.      .....|.. ..+.+|++||+.
T Consensus       210 NliELgPrGTGKS~vy~eiSp~---------~~liSGG~~T~----A~LFyn~------~~~~~GlV-~~~D~VafDEv~  269 (457)
T PF13337_consen  210 NLIELGPRGTGKSYVYKEISPY---------GILISGGQVTV----AKLFYNM------STGQIGLV-GRWDVVAFDEVA  269 (457)
T ss_pred             ceEEEcCCCCCceeehhhcCcc---------cEEEECCCcch----HHheeec------cCCcceee-eeccEEEEEecc
Confidence            4888999999999985544331         12222222110    0100000      00011111 256699999999


Q ss_pred             Ccc---HHHHHHHHHHHHhcc---------CcceEEEEecCc
Q psy12150        148 SMT---HAAQAALRRTMEKET---------KSTRFCLICNYV  177 (456)
Q Consensus       148 ~l~---~~~~~~Ll~~le~~~---------~~~~lIl~~~~~  177 (456)
                      .+.   ++....+..||+...         ...-+|+++|-.
T Consensus       270 ~i~f~d~d~i~imK~YMesG~fsRG~~~i~a~as~vf~GNi~  311 (457)
T PF13337_consen  270 GIKFKDKDEIQIMKDYMESGSFSRGKEEINADASMVFVGNIN  311 (457)
T ss_pred             CcccCChHHHHHHHHHHhccceeecccccccceeEEEEcCcC
Confidence            886   445567777887542         234577777743

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=95.91  E-value=0.027  Score=58.41  Aligned_cols=132  Identities=13%  Similarity=0.155  Sum_probs=99.2

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcC--CCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCC
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKG--GEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYS  394 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~--~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s  394 (456)
                      +++..+.+.+.|+||++++.|+.++...+  +..|+.++|.+++|.++...+-++++   .++...+...+..|..+|.+
T Consensus       210 eAL~~Ia~~s~GslR~al~~Ldkai~~~~~~~~~It~~~V~~llg~~~~~~if~L~~ai~~~d~~~Al~~l~~L~~~g~~  289 (507)
T PRK06645        210 EALRIIAYKSEGSARDAVSILDQAASMSAKSDNIISPQVINQMLGLVDSSVIIEFVEYIIHRETEKAINLINKLYGSSVN  289 (507)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Confidence            45666778899999999999988754332  23689999999999999988877775   58999999999999999999


Q ss_pred             HHHHHHHHHHHHh---cC----------------------CCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHH
Q psy12150        395 ATQLFDQFHDIVM---SA----------------------SSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVI  449 (456)
Q Consensus       395 ~~di~~~l~~~~~---~~----------------------~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~  449 (456)
                      ...++..|...+.   ..                      ..++......+++.+.+....++...+..+-+.-.+-.++
T Consensus       290 ~~~~l~~l~~~~~~l~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~e~~l~r~~  369 (507)
T PRK06645        290 LEIFIESVSDFIAYLNKVKMLPNYSLPIYESFNDRTKSILDKISLPHLSILWQIYNKGVGEIKISYNQLTETEMLVIKSI  369 (507)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccccccccchhHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhccCCCchHHHHHHHHHHH
Confidence            9988765522211   00                      1244556677777888888888888888877776666655


Q ss_pred             HH
Q psy12150        450 KA  451 (456)
Q Consensus       450 ~~  451 (456)
                      .+
T Consensus       370 ~~  371 (507)
T PRK06645        370 YS  371 (507)
T ss_pred             Hh
Confidence            43

>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=95.91  E-value=0.092  Score=46.42  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+.+.++..+
T Consensus        31 ~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          31 LAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHhcc
Confidence            8999999999999999999864

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

>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=95.90  E-value=0.011  Score=57.72  Aligned_cols=49  Identities=20%  Similarity=0.291  Sum_probs=38.9

Q ss_pred             cc-cccccHHHHHHHHHHHhc----CCCCe--EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         44 ID-DVIEQQEVVSVLKKCLSG----ADLPH--FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        44 ~~-~ivg~~~~~~~l~~~l~~----~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      |+ ++.|.++.+.++...++.    .....  ++|.||+|+|||++++.+.+.+..
T Consensus        59 f~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~  114 (358)
T PF08298_consen   59 FEDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEE  114 (358)
T ss_pred             ccccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhhe
Confidence            45 899999998887777642    22222  999999999999999999998744

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.90  E-value=0.028  Score=60.58  Aligned_cols=141  Identities=11%  Similarity=0.109  Sum_probs=67.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCC---------CCCCcE
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK---------PCPPFK  139 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~---------~~~~~~  139 (456)
                      +.|.||.|+||||++..++..+........+.-+.... ..... .+.+..+.............         ...+++
T Consensus       188 i~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt-~RigA-~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D  265 (767)
T PRK14723        188 LALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDS-FRIGA-LEQLRIYGRILGVPVHAVKDAADLRFALAALGDKH  265 (767)
T ss_pred             EEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcc-cchHH-HHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCC
Confidence            89999999999999999997652111001222222221 11111 12222222211100000000         013567


Q ss_pred             EEEEcCCCCccHH--HHHHHHHHHH-hccCcceEEEEecCcc----cccccccC----CceEEEecCCCHHHHHHHHHHH
Q psy12150        140 IVILDEADSMTHA--AQAALRRTME-KETKSTRFCLICNYVS----CIIQPLTS----RCSKFRFKPLAENTMLTRLQYI  208 (456)
Q Consensus       140 iviIDE~d~l~~~--~~~~Ll~~le-~~~~~~~lIl~~~~~~----kl~~~l~~----r~~~i~f~~~~~~el~~~l~~~  208 (456)
                      +||||=+.....+  ..+.+..+.+ ..+..+++|+.++...    .+.+.+..    ....+-|.++++..-.--+-.+
T Consensus       266 ~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~~~f~~~~~~~i~glIlTKLDEt~~~G~iL~i  345 (767)
T PRK14723        266 LVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVVHAYRHGAGEDVDGCIITKLDEATHLGPALDT  345 (767)
T ss_pred             EEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHHHHHhhcccCCCCEEEEeccCCCCCccHHHHH
Confidence            9999999877533  2233333232 2234455665554322    22233322    2345778888876644444444


Q ss_pred             HHH
Q psy12150        209 CEQ  211 (456)
Q Consensus       209 ~~~  211 (456)
                      +..
T Consensus       346 ~~~  348 (767)
T PRK14723        346 VIR  348 (767)
T ss_pred             HHH
Confidence            443

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

Probab=95.89  E-value=0.018  Score=54.68  Aligned_cols=43  Identities=28%  Similarity=0.291  Sum_probs=29.7

Q ss_pred             HHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC
Q psy12150         60 CLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        60 ~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      .+.+|-+..  ++++|+||+|||+++..++........  +++.+..
T Consensus        15 ~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge--~vlyvs~   59 (260)
T COG0467          15 ILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGE--PVLYVST   59 (260)
T ss_pred             HhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCC--cEEEEEe
Confidence            333444433  999999999999999999887665544  3444433

>PRK10867 signal recognition particle protein; Provisional

Probab=95.89  E-value=0.052  Score=55.17  Aligned_cols=25  Identities=28%  Similarity=0.329  Sum_probs=21.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      +++.|++|+||||++..++..+...
T Consensus       103 I~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867        103 IMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHh
Confidence            8999999999999999998876543

>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=95.87  E-value=0.011  Score=56.51  Aligned_cols=52  Identities=23%  Similarity=0.361  Sum_probs=37.3

Q ss_pred             CCcccccccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      -+++++.-.......+.+++...  .-.++++.|++|+||||++.++...+...
T Consensus       101 ~sle~l~~~~~~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~  154 (270)
T PF00437_consen  101 FSLEDLGESGSIPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPE  154 (270)
T ss_dssp             -CHCCCCHTHHCHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTT
T ss_pred             ccHhhccCchhhHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhcccc
Confidence            36777766655555555555433  12359999999999999999999987654

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 ....

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.86  E-value=0.027  Score=61.44  Aligned_cols=88  Identities=20%  Similarity=0.307  Sum_probs=71.1

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCHH
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSAT  396 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~  396 (456)
                      +++..+.+.+.|+||++++++..+.. .+...++-+.+.+++|.+....+..+++   .+++.++...+..++..|++..
T Consensus       201 eAL~lIA~~S~Gd~R~ALnLLdQala-~~~~~It~~~V~~llG~iD~~~V~~llksI~~~D~~aaL~~l~~Ll~~G~D~~  279 (944)
T PRK14949        201 EALTLLAKAANGSMRDALSLTDQAIA-FGGGQVMLTQVQTMLGSIDEQHVIALLKALTDADIGVLMQTCAQVLAFGADAQ  279 (944)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHH-hcCCcccHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHH
Confidence            45677888999999999999965553 2333577778999999998777777765   4789999989999999999999


Q ss_pred             HHHHHHHHHHhc
Q psy12150        397 QLFDQFHDIVMS  408 (456)
Q Consensus       397 di~~~l~~~~~~  408 (456)
                      +|+..|..+++.
T Consensus       280 ~ILr~Ll~~lRD  291 (944)
T PRK14949        280 EVLRSLLELLHQ  291 (944)
T ss_pred             HHHHHHHHHHHH
Confidence            999999777664

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=95.85  E-value=0.086  Score=51.40  Aligned_cols=24  Identities=21%  Similarity=0.426  Sum_probs=21.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++++.||+|+||||+++++...+.
T Consensus       146 ~ili~G~tGsGKTTll~al~~~~~  169 (308)
T TIGR02788       146 NIIISGGTGSGKTTFLKSLVDEIP  169 (308)
T ss_pred             EEEEECCCCCCHHHHHHHHHccCC
Confidence            699999999999999999998763

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.

>cd04177 RSR1 RSR1 subgroup

Probab=95.81  E-value=0.1  Score=45.61  Aligned_cols=23  Identities=17%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++++.|++|+|||++++++.+..
T Consensus         3 ki~liG~~~~GKTsli~~~~~~~   25 (168)
T cd04177           3 KIVVLGAGGVGKSALTVQFVQNV   25 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            38999999999999999998654

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase

Probab=95.80  E-value=0.026  Score=58.71  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++++|+||+||||+++.++...
T Consensus       372 Vil~G~pGSGKST~A~~l~~~~  393 (526)
T TIGR01663       372 VIAVGFPGAGKSHFCKKFFQPA  393 (526)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            9999999999999999999864

Note that the EC number for the kinase function is: 2.7.1.78

>PRK12608 transcription termination factor Rho; Provisional

Probab=95.78  E-value=0.022  Score=56.24  Aligned_cols=30  Identities=20%  Similarity=0.253  Sum_probs=24.9

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         64 ADLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        64 ~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      |+-...+|+||+|+|||++++.+++.+..+
T Consensus       131 GkGQR~LIvG~pGtGKTTLl~~la~~i~~~  160 (380)
T PRK12608        131 GKGQRGLIVAPPRAGKTVLLQQIAAAVAAN  160 (380)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            333458999999999999999999988654

>cd04110 Rab35 Rab35 subfamily

Probab=95.78  E-value=0.05  Score=49.30  Aligned_cols=22  Identities=27%  Similarity=0.551  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||+++..+...
T Consensus         8 kivvvG~~~vGKTsli~~l~~~   29 (199)
T cd04110           8 KLLIIGDSGVGKSSLLLRFADN   29 (199)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3999999999999999999764

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is

>PRK13808 adenylate kinase; Provisional

Probab=95.76  E-value=0.12  Score=50.54  Aligned_cols=24  Identities=29%  Similarity=0.569  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|+||||+|||++++.|++.++
T Consensus         2 rIiv~GpPGSGK~T~a~~LA~~yg   25 (333)
T PRK13808          2 RLILLGPPGAGKGTQAQRLVQQYG   25 (333)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            379999999999999999999864

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=95.76  E-value=0.03  Score=45.80  Aligned_cols=23  Identities=35%  Similarity=0.589  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +++.|++|+|||++++.++..-.
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS-
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            68999999999999999997643

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=95.76  E-value=0.077  Score=48.18  Aligned_cols=23  Identities=17%  Similarity=0.235  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      -++|.||.|+||||+++.++...
T Consensus        27 ~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          27 GILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             EEEEECCCCCChHHHHHHHHHHH
Confidence            38999999999999999998543

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

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.74  E-value=0.032  Score=50.05  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .++|.||+|+|||++++.+.+..
T Consensus         6 ~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          6 LFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            39999999999999999998864

>cd04140 ARHI_like ARHI subfamily

Probab=95.74  E-value=0.11  Score=45.36  Aligned_cols=21  Identities=24%  Similarity=0.513  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++.+...
T Consensus         4 v~~vG~~~vGKTsli~~~~~~   24 (165)
T cd04140           4 VVVFGAGGVGKSSLVLRFVKG   24 (165)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998764

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>PRK14712 conjugal transfer nickase/helicase TraI; Provisional

Probab=95.74  E-value=0.058  Score=62.66  Aligned_cols=123  Identities=17%  Similarity=0.199  Sum_probs=66.4

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC--CccccceEEeeCCCCcChHHHH------HHHHHHH
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG--DMYRERILELNASDDRGIQVIR------DKVKTFA  121 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~--~~~~~~~~e~n~~~~~~~~~i~------~~l~~~~  121 (456)
                      .+.....+..++.... ..++|.|.+||||||+++.+...+..  +.....++-+-... .-...+.      ..+..|.
T Consensus       837 t~~Qr~Av~~iLts~d-r~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTg-kAa~~L~e~Gi~A~TIasfL  914 (1623)
T PRK14712        837 TSGQRAATRMILETSD-RFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTH-RAVGEMRSAGVDAQTLASFL  914 (1623)
T ss_pred             CHHHHHHHHHHHhCCC-ceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechH-HHHHHHHHhCchHhhHHHHh
Confidence            3455566666665432 24899999999999999888765421  00011232221111 1111111      1122222


Q ss_pred             HhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        122 QQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      ............+..+..+|||||+..+.......|++.++.  ....+|++++.
T Consensus       915 ~~~~~~~~~~~~~~~~~~llIVDEASMV~~~~m~~ll~~~~~--~garvVLVGD~  967 (1623)
T PRK14712        915 HDTQLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAA--GGGRAVASGDT  967 (1623)
T ss_pred             ccccchhhcccCCCCCCcEEEEEccccccHHHHHHHHHhhhh--CCCEEEEEcch
Confidence            111000000011112457999999999998888888888864  34677788764

>PRK13709 conjugal transfer nickase/helicase TraI; Provisional

Probab=95.72  E-value=0.06  Score=63.32  Aligned_cols=122  Identities=17%  Similarity=0.209  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC--CccccceEEeeCCCCcChHHHH------HHHHHHHH
Q psy12150         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG--DMYRERILELNASDDRGIQVIR------DKVKTFAQ  122 (456)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~--~~~~~~~~e~n~~~~~~~~~i~------~~l~~~~~  122 (456)
                      +.....+..++.+.. ..++|.|.+||||||+++.+...+..  ......++-+-... .....+.      ..+..+..
T Consensus       970 ~~Q~~Av~~il~s~d-r~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTg-rAAk~L~e~Gi~A~TI~s~L~ 1047 (1747)
T PRK13709        970 SGQRAATRMILESTD-RFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTH-RAVGEMRSAGVDAQTLASFLH 1047 (1747)
T ss_pred             HHHHHHHHHHHhCCC-cEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcH-HHHHHHHhcCcchhhHHHHhc
Confidence            445555666665432 24899999999999999998877531  11111233221111 1111111      11112211


Q ss_pred             hhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        123 QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       123 ~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      ...........+.....+|||||+..+.......|++.+...  ...+|++++.
T Consensus      1048 ~~~~~~~~~~~~~~~~~llIVDEaSMv~~~~m~~Ll~~~~~~--garvVLVGD~ 1099 (1747)
T PRK13709       1048 DTQLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAG--GGRAVSSGDT 1099 (1747)
T ss_pred             ccccccccccCCCCCCcEEEEEccccccHHHHHHHHHhhhcC--CCEEEEecch
Confidence            100000000111124569999999999988888888887643  4677788763

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.72  E-value=0.035  Score=58.92  Aligned_cols=130  Identities=15%  Similarity=0.247  Sum_probs=94.1

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCHH
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSAT  396 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~  396 (456)
                      +++..+.+.+.||||++++.|..+... +...|+.++|.+++|..+...+-++++   .++...+...++.|...|++..
T Consensus       206 ~AL~~La~~s~GslR~al~lLdq~ia~-~~~~It~~~V~~~Lg~~~~~~i~~LldaL~~~d~~~al~~l~~l~~~G~~~~  284 (618)
T PRK14951        206 QALRLLARAARGSMRDALSLTDQAIAF-GSGQLQEAAVRQMLGSVDRSHVFRLIDALAQGDGRTVVETADELRLNGLSAA  284 (618)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCcCHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHH
Confidence            356677788999999999998544322 344688899999999998888777764   5899999999999999999999


Q ss_pred             HHHHHHHHHHhcC-------------------------CCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHH
Q psy12150        397 QLFDQFHDIVMSA-------------------------SSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  450 (456)
Q Consensus       397 di~~~l~~~~~~~-------------------------~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~  450 (456)
                      .++..|..++..+                         ..++......++..+-.....+...-++++.+.-.+..+..
T Consensus       285 ~il~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~em~l~r~~~  363 (618)
T PRK14951        285 STLEEMAAVLQRMAVLQAVPQAAAAATDPEAAEVARLAALMPADETQLLYSICLHGRAELGLAPDEYAALTMVLLRLLA  363 (618)
T ss_pred             HHHHHHHHHHHHHHHHHhCcccccccChHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHhh
Confidence            9999885444321                         11344445555666666666666667777766666655543

>PRK00625 shikimate kinase; Provisional

Probab=95.71  E-value=0.01  Score=52.52  Aligned_cols=25  Identities=32%  Similarity=0.264  Sum_probs=22.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +++|.|.||+||||+++.+++.+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~   26 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSL   26 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4799999999999999999998754

>COG1485 Predicted ATPase [General function prediction only]

Probab=95.71  E-value=0.015  Score=56.29  Aligned_cols=24  Identities=33%  Similarity=0.434  Sum_probs=22.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +++||+-|.|||.++..+...+-.
T Consensus        68 lYl~GgVGrGKT~LMD~Fy~~lp~   91 (367)
T COG1485          68 LYLWGGVGRGKTMLMDLFYESLPG   91 (367)
T ss_pred             EEEECCCCccHHHHHHHHHhhCCc
Confidence            999999999999999999988744

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.71  E-value=0.075  Score=50.81  Aligned_cols=38  Identities=16%  Similarity=0.213  Sum_probs=29.9

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        55 ~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ...+..+......-+-|.|+||+||||+++.+.+.+..
T Consensus        93 ~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~  130 (290)
T PRK10463         93 ERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKD  130 (290)
T ss_pred             HHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            44556666555555999999999999999999998754

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=95.69  E-value=0.012  Score=52.67  Aligned_cols=25  Identities=20%  Similarity=0.307  Sum_probs=22.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +-+++.|+||+||||+++.+++.++
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~~~~g   28 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIVEKYG   28 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4589999999999999999998863

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.

>cd04155 Arl3 Arl3 subfamily

Probab=95.67  E-value=0.18  Score=44.14  Aligned_cols=23  Identities=26%  Similarity=0.483  Sum_probs=20.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ..+++.|++|+|||++++.+...
T Consensus        15 ~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          15 PRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             cEEEEEccCCCCHHHHHHHHhcC
Confidence            34999999999999999999875

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>PLN02674 adenylate kinase

Probab=95.67  E-value=0.19  Score=47.02  Aligned_cols=25  Identities=24%  Similarity=0.522  Sum_probs=22.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.++|.||||+||+|.++.+++.++
T Consensus        32 ~~i~l~G~PGsGKgT~a~~La~~~~   56 (244)
T PLN02674         32 KRLILIGPPGSGKGTQSPIIKDEYC   56 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHcC
Confidence            4499999999999999999999864

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.67  E-value=0.049  Score=53.15  Aligned_cols=64  Identities=14%  Similarity=0.104  Sum_probs=41.0

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCC----ccccceEEeeCCCCcChHHHHHHHH
Q psy12150         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGD----MYRERILELNASDDRGIQVIRDKVK  118 (456)
Q Consensus        55 ~~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~----~~~~~~~e~n~~~~~~~~~i~~~l~  118 (456)
                      ..+...+.+|-+..  +.++||||+|||+++..++.....+    .....+++++.......+.+.+.+.
T Consensus        82 ~~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~~  151 (310)
T TIGR02236        82 KELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAE  151 (310)
T ss_pred             HHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHHHH
Confidence            34555565554444  8999999999999999988764321    1123678888776444554544443

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.

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=95.66  E-value=0.11  Score=47.31  Aligned_cols=21  Identities=24%  Similarity=0.313  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      .++|+||.|+|||++.+.++.
T Consensus        31 ~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          31 LLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             EEEEECCCCCccHHHHHHHHH
Confidence            389999999999999999984

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

>cd00876 Ras Ras family

Probab=95.66  E-value=0.07  Score=45.81  Aligned_cols=21  Identities=24%  Similarity=0.417  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++.++...
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999999754

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=95.66  E-value=0.042  Score=59.32  Aligned_cols=42  Identities=19%  Similarity=0.305  Sum_probs=27.7

Q ss_pred             CCcEEEEEcCCC-CccHHHHHHHHHHHHhccCcceEEEEecCc
Q psy12150        136 PPFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYV  177 (456)
Q Consensus       136 ~~~~iviIDE~d-~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~  177 (456)
                      .+.+|+++||+- .|..+....+.+.|.+......+|+++.+.
T Consensus       626 ~~P~ILlLDEaTSaLD~~sE~~I~~~L~~~~~~~T~I~IaHRl  668 (709)
T COG2274         626 SKPKILLLDEATSALDPETEAIILQNLLQILQGRTVIIIAHRL  668 (709)
T ss_pred             cCCCEEEEeCcccccCHhHHHHHHHHHHHHhcCCeEEEEEccc
Confidence            355699999985 556666666777776665444555566554

>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=95.66  E-value=0.016  Score=56.29  Aligned_cols=120  Identities=21%  Similarity=0.243  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCC
Q psy12150         51 QEVVSVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGF  128 (456)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~  128 (456)
                      +..+-.+.+.+-.+.+..  ++|-||-.|||||+|.++.+-+++     ..+.+|+..++-        .--.+.+.   
T Consensus       138 ~~~i~~iL~~lv~N~PKkRy~lFkGPvNsGKTTlAAAlLdL~gG-----~~LNvN~p~dkl--------~FELG~Ai---  201 (417)
T PF06431_consen  138 DDVILEILKCLVENIPKKRYWLFKGPVNSGKTTLAAALLDLCGG-----KSLNVNCPPDKL--------NFELGCAI---  201 (417)
T ss_dssp             HHHHHHHHHHHHHTBTTB-EEEEE-STTSSHHHHHHHHHHHH-E-----EEE-TSS-TTTH--------HHHHCCCT---
T ss_pred             HHHHHHHHHHHhcCCCcceeEEEecCcCCchHHHHHHHHHhcCC-----ceeecCCChhhc--------chhhheee---
Confidence            344444444444444433  999999999999999999998765     456677765321        11111111   


Q ss_pred             CCCCCCCCCcEEEEEcCCCCc-------cH----HHHHHHHHHHHhcc--------------CcceEEEEecCccccccc
Q psy12150        129 NQDGKPCPPFKIVILDEADSM-------TH----AAQAALRRTMEKET--------------KSTRFCLICNYVSCIIQP  183 (456)
Q Consensus       129 ~~~~~~~~~~~iviIDE~d~l-------~~----~~~~~Ll~~le~~~--------------~~~~lIl~~~~~~kl~~~  183 (456)
                              +.=.|+++++-.-       ++    ...+.|+.+|+..-              -.+.-|+++|.+ .+...
T Consensus       202 --------DQfmVvFEDVKGq~~~~~~Lp~G~G~~NLDNLRD~LDG~V~VNLErKH~NK~sQiFPPgIvTmNeY-~iP~T  272 (417)
T PF06431_consen  202 --------DQFMVVFEDVKGQPSDNKDLPPGQGMNNLDNLRDYLDGAVKVNLERKHQNKRSQIFPPGIVTMNEY-KIPQT  272 (417)
T ss_dssp             --------T-SEEEEEEE--SSTTTTT----SHHHHHHTTHHHHH-SS-EEEECSSSEEEEE----EEEEESS--B--HH
T ss_pred             --------ceEEEEEEecCCCcCCCCCCCCCCCcccchhhhhhccCceeechhhhhcccccccCCCceEeeccc-cCCcc
Confidence                    1116677765332       22    24677889987421              012245566543 56777


Q ss_pred             ccCCce-EEEecC
Q psy12150        184 LTSRCS-KFRFKP  195 (456)
Q Consensus       184 l~~r~~-~i~f~~  195 (456)
                      ++-|+. .+.|.+
T Consensus       273 v~vRf~~~~~F~~  285 (417)
T PF06431_consen  273 VKVRFCKVLDFRP  285 (417)
T ss_dssp             HHTTEEEEEE---
T ss_pred             eeeeeEeeEeccc
Confidence            888876 667744

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.

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=95.66  E-value=0.06  Score=57.53  Aligned_cols=22  Identities=41%  Similarity=0.537  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||+++.+....
T Consensus       379 vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        379 IALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            9999999999999999998865

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.65  E-value=0.038  Score=58.31  Aligned_cols=131  Identities=16%  Similarity=0.213  Sum_probs=98.4

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCH-
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSA-  395 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~-  395 (456)
                      +++..+.+.+.|+||++++++.+... .++..|+.+.|.+++|.+....+.++++   .+++......++.+...|++. 
T Consensus       206 eAL~~IA~~A~Gs~RdALsLLdQaia-~~~~~It~~~V~~~LG~~d~~~i~~Ll~aL~~~d~~~~l~l~~~l~~~G~d~~  284 (700)
T PRK12323        206 NALRLLAQAAQGSMRDALSLTDQAIA-YSAGNVSEEAVRGMLGAIDQSYLVRLLDALAAEDGAALLAIADEMAGRSLSFA  284 (700)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHH-hccCCcCHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHH
Confidence            35667788999999999999865443 2334688888999999999888777764   588999999999999999995 


Q ss_pred             ---HHHHHHHHHHHhcC--------------------CCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        396 ---TQLFDQFHDIVMSA--------------------SSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       396 ---~di~~~l~~~~~~~--------------------~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                         .|++..+++....-                    ..++...+..++..+-+....|...-+.++.+.-.+..+..+
T Consensus       285 ~~L~dLl~~l~~l~l~q~~~~~~~~~~~~~~~~~~~a~~~s~~~l~~~~q~~~~~~~el~~a~~~~~~~Em~llrll~~  363 (700)
T PRK12323        285 GALQDLASLLQKIALAQVVPAAVQDDWPEADDIRRLAGRFDAQEVQLFYQIANLGRSELALAPDEYAGFTMTLLRMLAF  363 (700)
T ss_pred             HHHHHHHHHHHHHHHHhhCchhcccccchHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHhhC
Confidence               55555555443321                    114566677778888888888888888888888777776654

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=95.63  E-value=0.12  Score=47.65  Aligned_cols=51  Identities=20%  Similarity=0.268  Sum_probs=34.0

Q ss_pred             CcEEEEEcCC-CCccHHHHHHHHHHHHh---ccCcceEEEEecCcccccccccCC
Q psy12150        137 PFKIVILDEA-DSMTHAAQAALRRTMEK---ETKSTRFCLICNYVSCIIQPLTSR  187 (456)
Q Consensus       137 ~~~iviIDE~-d~l~~~~~~~Ll~~le~---~~~~~~lIl~~~~~~kl~~~l~~r  187 (456)
                      +..++|+||. +.|.....+.|++++++   .++.+-+++++.....+.+-+..+
T Consensus       189 ~P~LLiLDEP~~GLDl~~re~ll~~l~~~~~~~~~~~ll~VtHh~eEi~~~~th~  243 (257)
T COG1119         189 DPELLILDEPAQGLDLIAREQLLNRLEELAASPGAPALLFVTHHAEEIPPCFTHR  243 (257)
T ss_pred             CCCEEEecCccccCChHHHHHHHHHHHHHhcCCCCceEEEEEcchhhcccccceE
Confidence            3459999995 56666666677777664   234566778888777766655443

>PRK14531 adenylate kinase; Provisional

Probab=95.62  E-value=0.011  Score=52.93  Aligned_cols=25  Identities=36%  Similarity=0.647  Sum_probs=22.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+++.|+||+||||+++.+++.++.
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~g~   28 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAHGL   28 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3899999999999999999998743

>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI

Probab=95.62  E-value=0.085  Score=63.44  Aligned_cols=120  Identities=18%  Similarity=0.265  Sum_probs=67.8

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHH-------HHHH
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVK-------TFAQ  122 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~-------~~~~  122 (456)
                      .+.....+...+.+.. .-.+|.|++|+|||++++.+.+.+.....  .+.-+-.+. .....+.+...       .+..
T Consensus       431 s~~Q~~Av~~il~s~~-~v~ii~G~aGTGKTt~l~~l~~~~~~~G~--~V~~lAPTg-rAA~~L~e~~g~~A~Ti~~~l~  506 (1960)
T TIGR02760       431 SPSNKDAVSTLFTSTK-RFIIINGFGGTGSTEIAQLLLHLASEQGY--EIQIITAGS-LSAQELRQKIPRLASTFITWVK  506 (1960)
T ss_pred             CHHHHHHHHHHHhCCC-CeEEEEECCCCCHHHHHHHHHHHHHhcCC--eEEEEeCCH-HHHHHHHHHhcchhhhHHHHHH
Confidence            4555666666666532 24899999999999999999987654333  333332221 12222222111       0000


Q ss_pred             hhccC--------CCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEec
Q psy12150        123 QTASG--------FNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN  175 (456)
Q Consensus       123 ~~~~~--------~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~  175 (456)
                      .....        +.....|..+..+|||||+..+.......|++.....  +..+|++++
T Consensus       507 ~l~~~~~~~tv~~fl~~~~~l~~~~vlIVDEAsMl~~~~~~~Ll~~a~~~--garvVlvGD  565 (1960)
T TIGR02760       507 NLFNDDQDHTVQGLLDKSSPFSNKDIFVVDEANKLSNNELLKLIDKAEQH--NSKLILLND  565 (1960)
T ss_pred             hhcccccchhHHHhhcccCCCCCCCEEEEECCCCCCHHHHHHHHHHHhhc--CCEEEEEcC
Confidence            00000        0001122235679999999999988888888766543  355666665

This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.60  E-value=0.011  Score=50.90  Aligned_cols=24  Identities=29%  Similarity=0.346  Sum_probs=21.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +-+.|+|||||||+++.+++.++-
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl   26 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGL   26 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCC
Confidence            568999999999999999999854

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=95.60  E-value=0.14  Score=44.69  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ..+++||.|+|||++++++.-.+
T Consensus        23 ~~~i~G~NgsGKS~~l~~i~~~~   45 (162)
T cd03227          23 LTIITGPNGSGKSTILDAIGLAL   45 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48999999999999999976544

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.

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=95.60  E-value=0.09  Score=48.82  Aligned_cols=23  Identities=30%  Similarity=0.572  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.||+||||||+.+.+-+-+.
T Consensus        30 ~vliGpSGsGKTTtLkMINrLie   52 (309)
T COG1125          30 LVLIGPSGSGKTTTLKMINRLIE   52 (309)
T ss_pred             EEEECCCCCcHHHHHHHHhcccC
Confidence            79999999999999998877553

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.58  E-value=0.0094  Score=52.16  Aligned_cols=23  Identities=35%  Similarity=0.602  Sum_probs=20.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +++.||+|+||||+++.+++.+.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~   23 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLG   23 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcC
Confidence            47899999999999999999873

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=95.58  E-value=0.088  Score=45.49  Aligned_cols=22  Identities=23%  Similarity=0.382  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++.+...-
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999998653

Rab GTPases are implicated in vesicle trafficking.

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=95.58  E-value=0.012  Score=50.66  Aligned_cols=24  Identities=25%  Similarity=0.195  Sum_probs=21.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|+|++|+|||++++.+++.++.
T Consensus         2 i~l~G~~GsGKstla~~la~~l~~   25 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALGL   25 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCC
Confidence            789999999999999999998743

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.

>PRK13949 shikimate kinase; Provisional

Probab=95.57  E-value=0.015  Score=51.36  Aligned_cols=25  Identities=28%  Similarity=0.243  Sum_probs=22.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +++|.|+||+|||++++.+++.+..
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~~   27 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELGL   27 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC
Confidence            5899999999999999999998743

>KOG0989|consensus

Probab=95.56  E-value=0.015  Score=55.03  Aligned_cols=92  Identities=29%  Similarity=0.368  Sum_probs=58.5

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCccccc-chhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHH
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNED-VLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQL  398 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~-~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di  398 (456)
                      ++++.+...|+||||++++.||++++  .+..|++.- +-++.|..|...+.++            ++.  ..--+..++
T Consensus       211 ~al~~I~~~S~GdLR~Ait~Lqsls~--~gk~It~~~~~e~~~GvVp~~~l~~l------------le~--a~S~d~~~~  274 (346)
T KOG0989|consen  211 DALKLIAKISDGDLRRAITTLQSLSL--LGKRITTSLVNEELAGVVPDEKLLDL------------LEL--ALSADTPNT  274 (346)
T ss_pred             HHHHHHHHHcCCcHHHHHHHHHHhhc--cCcccchHHHHHHHhccCCHHHHHHH------------HHH--HHccChHHH
Confidence            67888999999999999999999998  466788555 4455668777666552            221  111233455


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhh
Q psy12150        399 FDQFHDIVMSASSLSDKQKALILEKLAECNARLQ  432 (456)
Q Consensus       399 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~  432 (456)
                      +.-...++..  .++.   ..++..|+++=....
T Consensus       275 v~~~Rei~~s--g~~~---~~lmsQLa~vi~~~~  303 (346)
T KOG0989|consen  275 VKRVREIMRS--GYSP---LQLMSQLAEVIMDII  303 (346)
T ss_pred             HHHHHHHHHh--ccCH---HHHHHHHHHHHHhcc
Confidence            5555555543  4555   445555555544444

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.56  E-value=0.034  Score=51.66  Aligned_cols=42  Identities=21%  Similarity=0.215  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         52 EVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        52 ~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      .+++.+..+......+. +.|.||+|+||||+++.++..+...
T Consensus        18 ~l~~~~~~~~~~~~~~~iigi~G~~GsGKTTl~~~L~~~l~~~   60 (229)
T PRK09270         18 PLLRRLAALQAEPQRRTIVGIAGPPGAGKSTLAEFLEALLQQD   60 (229)
T ss_pred             HHHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            34455556655433333 9999999999999999999987543

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=95.55  E-value=0.12  Score=47.77  Aligned_cols=21  Identities=29%  Similarity=0.382  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|.+|+|||+++..+...
T Consensus        16 i~vvG~~gvGKTsli~~~~~~   36 (219)
T PLN03071         16 LVIVGDGGTGKTTFVKRHLTG   36 (219)
T ss_pred             EEEECcCCCCHHHHHHHHhhC
Confidence            999999999999999987654

>KOG0922|consensus

Probab=95.55  E-value=0.12  Score=53.84  Aligned_cols=35  Identities=11%  Similarity=0.229  Sum_probs=24.7

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q psy12150         53 VVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        53 ~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ..++|...+++..  -+++.|+.||||||-+=.+..+
T Consensus        55 ~r~~il~~ve~nq--vlIviGeTGsGKSTQipQyL~e   89 (674)
T KOG0922|consen   55 YRDQILYAVEDNQ--VLIVIGETGSGKSTQIPQYLAE   89 (674)
T ss_pred             HHHHHHHHHHHCC--EEEEEcCCCCCccccHhHHHHh
Confidence            3466667776543  4899999999999966544433

>cd01878 HflX HflX subfamily

Probab=95.54  E-value=0.59  Score=42.23  Aligned_cols=23  Identities=22%  Similarity=0.307  Sum_probs=20.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.+++.|++|+|||++++.+...
T Consensus        42 ~~I~iiG~~g~GKStLl~~l~~~   64 (204)
T cd01878          42 PTVALVGYTNAGKSTLFNALTGA   64 (204)
T ss_pred             CeEEEECCCCCCHHHHHHHHhcc
Confidence            45999999999999999998875

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.53  E-value=0.015  Score=51.65  Aligned_cols=25  Identities=24%  Similarity=0.221  Sum_probs=22.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+++.|+||+||||+++.+++.+..
T Consensus         4 ~i~l~G~~gsGKst~a~~l~~~~~~   28 (175)
T cd00227           4 IIILNGGSSAGKSSIARALQSVLAE   28 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCC
Confidence            3899999999999999999998643

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

>PRK14530 adenylate kinase; Provisional

Probab=95.53  E-value=0.013  Score=53.95  Aligned_cols=25  Identities=24%  Similarity=0.413  Sum_probs=22.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .++|.|+||+||||+++.+++.++.
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~~   29 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFGV   29 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5899999999999999999998743

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	456
1sxj_D	353	Crystal Structure Of The Eukaryotic Clamp Loader (R		3e-79
1sxj_D	353	Crystal Structure Of The Eukaryotic Clamp Loader (R		2e-12
2chq_A	319	Replication Factor C Adpnp Complex Length = 319		5e-61
2chq_A	319	Replication Factor C Adpnp Complex Length = 319		2e-05
2chg_A	226	Replication Factor C Domains 1 And 2 Length = 226		2e-60
1iqp_A	327	Crystal Structure Of The Clamp Loader Small Subunit		2e-58
1iqp_A	327	Crystal Structure Of The Clamp Loader Small Subunit		3e-06
1sxj_C	340	Crystal Structure Of The Eukaryotic Clamp Loader (R		3e-57
1sxj_B	323	Crystal Structure Of The Eukaryotic Clamp Loader (R		5e-52
1sxj_B	323	Crystal Structure Of The Eukaryotic Clamp Loader (R		2e-05
1sxj_E	354	Crystal Structure Of The Eukaryotic Clamp Loader (R		1e-28
3u5z_B	324	Structure Of T4 Bacteriophage Clamp Loader Bound To		2e-19
3glh_B	376	Crystal Structure Of The E. Coli Clamp Loader Bound		1e-12
1jr3_A	373	Crystal Structure Of The Processivity Clamp Loader		2e-12
3glf_B	395	Crystal Structure Of The Ecoli Clamp Loader Bound T		2e-12
1xxi_B	368	Adp Bound E. Coli Clamp Loader Complex Length = 368		2e-12
3glg_B	395	Crystal Structure Of A Mutant (Gammat157a) E. Coli		2e-12
1njg_A	250	Nucleotide-Free Form Of An Isolated E. Coli Clamp L		4e-12
1sxj_A	516	Crystal Structure Of The Eukaryotic Clamp Loader (R		4e-12
3pvs_A	447	Structure And Biochemical Activities Of Escherichia		5e-05
1ixr_C	312	Ruva-Ruvb Complex Length = 312		2e-04
1ixs_B	318	Structure Of Ruvb Complexed With Ruva Domain Iii Le		2e-04
1hqc_A	324	Structure Of Ruvb From Thermus Thermophilus Hb8 Len		2e-04

>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 353

Iteration: 1
 Score =  292 bits (747), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 147/281 (52%), Positives = 194/281 (69%), Gaps = 11/281 (3%)
Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG- 92
           PWVEKYRPK +D+V  Q   V+VLKK L  A+LPH LFYGPPGTGKTST++A   +L+G 
Sbjct: 26  PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGP 85
Query: 93  DMYRERILELNASDDRGIQVIRDKVKTFAQQTASG---FNQDGKPCPPFKIVILDEADSM 149
           D+ + RILELNASD+RGI ++R+KVK FA+ T S     + +  PCPP+KI+ILDEADSM
Sbjct: 86  DLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSM 145
Query: 150 THAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYIC 209
           T  AQ+ALRRTME  +  TRFCLICNYV+ II PL S+CSKFRFK L  +  + RL++I 
Sbjct: 146 TADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFIS 205
Query: 210 EQESVMCDFKALETLVETSGGDMRRAITCLQSCAR----LKGGEGIVNEDVLEVTGVIPK 265
           EQE+V CD   LE +++ S GD+RR IT LQS ++    L  G+ I +  V E+ GV+P 
Sbjct: 206 EQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGVVPH 265
Query: 266 P-WIEKLLKVDS--FQVLEKYIEDLILEAYSATQLFDQFHD 303
              IE + KV S  F  ++KY+   +   +SA  + +Q H+
Sbjct: 266 DILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHE 306

>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 353

Iteration: 1
 Score = 70.5 bits (171), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 43/130 (33%), Positives = 73/130 (56%), Gaps = 7/130 (5%)
Query: 322 LETLVETSGGDMRRAITCLQSCAR----LKGGEGIVNEDVLEVTGVIPNP-WIEKLLKVD 376
           LE +++ S GD+RR IT LQS ++    L  G+ I +  V E+ GV+P+   IE + KV 
Sbjct: 217 LERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGVVPHDILIEIVEKVK 276
Query: 377 S--FQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDG 434
           S  F  ++KY+   +   +SA  + +Q H+  ++  +     K  I   L   ++RL +G
Sbjct: 277 SGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWLLFTTDSRLNNG 336
Query: 435 ASEYIQILDL 444
            +E+IQ+L+L
Sbjct: 337 TNEHIQLLNL 346

>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex Length = 319

Iteration: 1
 Score =  231 bits (590), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 114/227 (50%), Positives = 150/227 (66%), Gaps = 9/227 (3%)
Query: 35  WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM 94
           WVEKYRP+T+D+V+ Q EV+  LK  +   ++PH LF GPPGTGKT+T IA    LFG+ 
Sbjct: 7   WVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGEN 66
Query: 95  YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQ 154
           +R+  +E+NASD+RGI V+R K+K FA+    G         PFKI+ LDEAD++T  AQ
Sbjct: 67  WRDNFIEMNASDERGIDVVRHKIKEFARTAPIG-------GAPFKIIFLDEADALTADAQ 119
Query: 155 AALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESV 214
           AALRRTME  +KS RF L CNYVS II+P+ SRC+ FRFKP+ +  M  RL  ICE+E V
Sbjct: 120 AALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGV 179
Query: 215 MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG 261
                 LE L+  SGGD R+AI  LQ  A +  GE +  + + ++T 
Sbjct: 180 KITEDGLEALIYISGGDFRKAINALQGAAAI--GEVVDADTIYQITA 224

>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex Length = 319

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 36/126 (28%), Positives = 66/126 (52%), Gaps = 9/126 (7%)
Query: 321 ALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---DS 377
            LE L+  SGGD R+AI  LQ  A +  GE +  + + ++T       + +L++     +
Sbjct: 185 GLEALIYISGGDFRKAINALQGAAAI--GEVVDADTIYQITATARPEEMTELIQTALKGN 242
Query: 378 FQVLEKYIEDLILE-AYSATQLFDQ-FHDIVMSASSLSDKQKALILEKLAECNARLQDGA 435
           F    + ++ L++E   S   +  Q F +I+  +  + D  K  +++KL E + RL +GA
Sbjct: 243 FMEARELLDRLMVEYGMSGEDIVAQLFREII--SMPIKDSLKVQLIDKLGEVDFRLTEGA 300
Query: 436 SEYIQI 441
           +E IQ+
Sbjct: 301 NERIQL 306

>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2 Length = 226

Iteration: 1
 Score =  230 bits (586), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 114/227 (50%), Positives = 150/227 (66%), Gaps = 9/227 (3%)
Query: 35  WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM 94
           WVEKYRP+T+D+V+ Q EV+  LK  +   ++PH LF GPPGTGKT+T IA    LFG+ 
Sbjct: 7   WVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGEN 66
Query: 95  YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQ 154
           +R+  +E+NASD+RGI V+R K+K FA+    G         PFKI+ LDEAD++T  AQ
Sbjct: 67  WRDNFIEMNASDERGIDVVRHKIKEFARTAPIG-------GAPFKIIFLDEADALTADAQ 119
Query: 155 AALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESV 214
           AALRRTME  +KS RF L CNYVS II+P+ SRC+ FRFKP+ +  M  RL  ICE+E V
Sbjct: 120 AALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGV 179
Query: 215 MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG 261
                 LE L+  SGGD R+AI  LQ  A +  GE +  + + ++T 
Sbjct: 180 KITEDGLEALIYISGGDFRKAINALQGAAAI--GEVVDADTIYQITA 224

>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From Pyrococcus Furiosus Length = 327

Iteration: 1
 Score =  223 bits (567), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 117/273 (42%), Positives = 162/273 (59%), Gaps = 13/273 (4%)
Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD 93
           PWVEKYRP+ +DD++ Q+ +V  LK  +    +PH LF GPPG GKT+  +A   +LFG+
Sbjct: 14  PWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE 73
Query: 94  MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA 153
            +R   LELNASD+RGI VIR+KVK FA+    G          FKI+ LDEAD++T  A
Sbjct: 74  NWRHNFLELNASDERGINVIREKVKEFARTKPIG-------GASFKIIFLDEADALTQDA 126
Query: 154 QAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQES 213
           Q ALRRTME  + + RF L CNY S II+P+ SRC+ FRF+PL +  +  RL+YI E E 
Sbjct: 127 QQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEG 186
Query: 214 VMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKL-- 271
           +    + L+ ++  + GDMRRAI  LQ+ A L   + I +E+V  V        I ++  
Sbjct: 187 LELTEEGLQAILYIAEGDMRRAINILQAAAAL--DKKITDENVFMVASRARPEDIREMML 244
Query: 272 --LKVDSFQVLEKYIEDLILEAYSATQLFDQFH 302
             LK +  +  EK  E L+ +  S   +  Q H
Sbjct: 245 LALKGNFLKAREKLREILLKQGLSGEDVLVQMH 277

>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From Pyrococcus Furiosus Length = 327

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 39/126 (30%), Positives = 65/126 (51%), Gaps = 7/126 (5%)
Query: 320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKL----LKV 375
           + L+ ++  + GDMRRAI  LQ+ A L   + I +E+V  V        I ++    LK 
Sbjct: 192 EGLQAILYIAEGDMRRAINILQAAAALD--KKITDENVFMVASRARPEDIREMMLLALKG 249
Query: 376 DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGA 435
           +  +  EK  E L+ +  S   +  Q H  V +   + + +K L+ +K+ E N RL +GA
Sbjct: 250 NFLKAREKLREILLKQGLSGEDVLVQMHKEVFNLP-IEEPKKVLLADKIGEYNFRLVEGA 308
Query: 436 SEYIQI 441
           +E IQ+
Sbjct: 309 NEIIQL 314

>pdb|1SXJ|C Chain C, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 340

Iteration: 1
 Score =  219 bits (558), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 108/236 (45%), Positives = 156/236 (66%), Gaps = 9/236 (3%)
Query: 33  VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG 92
           +PWVEKYRP+T+D+V  Q EV++ ++K +    LPH LFYGPPGTGKTST++A   +++G
Sbjct: 13  LPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYG 72
Query: 93  DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA 152
             Y   +LELNASDDRGI V+R+++K FA  T   F++       FK++ILDEAD+MT+A
Sbjct: 73  KNYSNMVLELNASDDRGIDVVRNQIKDFA-STRQIFSKG------FKLIILDEADAMTNA 125
Query: 153 AQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQE 212
           AQ ALRR +E+ TK+TRFC++ NY   +   L S+C++FRF+PL +  +  R+  +   E
Sbjct: 126 AQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHE 185
Query: 213 SVMCDFKALETLVETSGGDMRRAITCLQSC-ARLKG-GEGIVNEDVLEVTGVIPKP 266
            +     A + L+E S GDMRR +  LQSC A L    E  +++DV+      P+P
Sbjct: 186 KLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRP 241

>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 323

Iteration: 1
 Score =  201 bits (512), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 112/269 (41%), Positives = 156/269 (57%), Gaps = 21/269 (7%)
Query: 33  VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG 92
           +PWVEKYRP+ + D++  +E +  L++     ++PH +  G PG GKT+++    H+L G
Sbjct: 9   LPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLG 68
Query: 93  DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP--FKIVILDEADSMT 150
             Y + +LELNASDDRGI V+R+++K FAQ+            PP   KIVILDEADSMT
Sbjct: 69  RSYADGVLELNASDDRGIDVVRNQIKHFAQKKLH--------LPPGKHKIVILDEADSMT 120
Query: 151 HAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE 210
             AQ ALRRTME  + STRF   CN  + II+PL S+C+  R+  L++  +L RL  I +
Sbjct: 121 AGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIK 180
Query: 211 QESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEK 270
            E V      LE ++ T+ GDMR+AI  LQS      G G+VN D +      P P I K
Sbjct: 181 LEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTV---AGHGLVNADNVFKIVDSPHPLIVK 237
Query: 271 LLKV-----DSFQVLEKYIEDLILEAYSA 294
            + +     DS Q+L     DL  + YS+
Sbjct: 238 KMLLASNLEDSIQILR---TDLWKKGYSS 263

>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 323

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 36/140 (25%), Positives = 68/140 (48%), Gaps = 11/140 (7%)
Query: 321 ALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV----- 375
            LE ++ T+ GDMR+AI  LQS      G G+VN D +      P+P I K + +     
Sbjct: 190 GLEAIIFTAEGDMRQAINNLQSTV---AGHGLVNADNVFKIVDSPHPLIVKKMLLASNLE 246
Query: 376 DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGA 435
           DS Q+L     DL  + YS+  +      +  + + + +  +  +++++   + R+ +G 
Sbjct: 247 DSIQILR---TDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGV 303
Query: 436 SEYIQILDLGSIVIKANKTA 455
             Y+Q+  + + + K N  A
Sbjct: 304 GTYLQLASMLAKIHKLNNKA 323

>pdb|1SXJ|E Chain E, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 354

Iteration: 1
 Score =  124 bits (310), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 97/288 (33%), Positives = 150/288 (52%), Gaps = 45/288 (15%)
Query: 35  WVEKYRPKTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFG 92
           WV+KYRPK+++ +   +E+ + LK  LS    DLPH L YGP GTGK +  +A    +FG
Sbjct: 4   WVDKYRPKSLNALSHNEELTNFLKS-LSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFG 62
Query: 93  -DMYRERI------------LELN---------------ASDDRGIQVIRDKVKTFAQQT 124
             +YR +I            LELN                ++DR   VI++ +K  AQ  
Sbjct: 63  PGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDR--IVIQELLKEVAQME 120
Query: 125 ASGFNQDGKP--CPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQ 182
              F QD K      +K VI++EA+S+T  AQAALRRTMEK +K+ R  ++C+ +S II 
Sbjct: 121 QVDF-QDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIA 179
Query: 183 PLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGGDMRRAITCLQS 241
           P+ S+C   R    +++ + T L  +   E +  + K  L+ + + S G++R ++  L+S
Sbjct: 180 PIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLES 239
Query: 242 CARLKGGEGIVNEDVLEVTGVIPKP-WIEKLLKVDSFQVLEKYIEDLI 288
            A       + NE  L+ +  I KP WI  + K+    V E+ +  LI
Sbjct: 240 MA-------LNNELALKSSSPIIKPDWIIVIHKLTRKIVKERSVNSLI 280

>pdb|3U5Z|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4 Clamp, Primer-Template Dna, And Atp Analog Length = 324

Iteration: 1
 Score = 93.6 bits (231), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 73/233 (31%), Positives = 115/233 (49%), Gaps = 28/233 (12%)
Query: 37  EKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGP-PGTGKTSTMIAACHQLFGDMY 95
           +KYRP TID+ I         K   S   +PH + + P PGTGKT+   A CH +  DM 
Sbjct: 18  QKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNADM- 76
Query: 96  RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-AQ 154
               + +N SD + I  +R  +  FA  +A+ F  DG+     K++++DE D    A +Q
Sbjct: 77  ----MFVNGSDCK-IDFVRGPLTNFA--SAASF--DGRQ----KVIVIDEFDRSGLAESQ 123
Query: 155 AALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRF-KPLAENT------MLTRLQY 207
             LR  ME  + +    +  N +  II+PL SRC    F +P  E+       M+ RL  
Sbjct: 124 RHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPTDEDKIEMMKQMIRRLTE 183
Query: 208 ICEQESV-MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEV 259
           IC+ E + + D K +  LV+ +  D R+ I  L S +     +G+++  +L +
Sbjct: 184 ICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDSYS----SKGVLDAGILSL 232

>pdb|3GLH|B Chain B, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi Peptide Length = 376

Iteration: 1
 Score = 70.9 bits (172), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 60/236 (25%), Positives = 106/236 (44%), Gaps = 31/236 (13%)
Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
           K+RP+T  DV+ Q+ V++ L   LS   + H +LF G  G GKTS            T I
Sbjct: 12  KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 71
Query: 85  AACHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
            A      D  RE        ++E++A+    ++  RD +       A G          
Sbjct: 72  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGR--------- 122
Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
           FK+ ++DE   ++  +  AL +T+E+  +  +F L       +   + SRC +F  K L 
Sbjct: 123 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALD 182
Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN 253
              +  +L++I  +E +  + +AL+ L   + G +R A++       +  G+G V+
Sbjct: 183 VEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQA--IASGDGQVS 236

>pdb|1JR3|A Chain A, Crystal Structure Of The Processivity Clamp Loader Gamma Complex Of E. Coli Dna Polymerase Iii Length = 373

Iteration: 1
 Score = 70.5 bits (171), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 60/236 (25%), Positives = 106/236 (44%), Gaps = 31/236 (13%)
Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
           K+RP+T  DV+ Q+ V++ L   LS   + H +LF G  G GKTS            T I
Sbjct: 9   KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 68
Query: 85  AACHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
            A      D  RE        ++E++A+    ++  RD +       A G          
Sbjct: 69  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGR--------- 119
Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
           FK+ ++DE   ++  +  AL +T+E+  +  +F L       +   + SRC +F  K L 
Sbjct: 120 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALD 179
Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN 253
              +  +L++I  +E +  + +AL+ L   + G +R A++       +  G+G V+
Sbjct: 180 VEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQA--IASGDGQVS 233

>pdb|3GLF|B Chain B, Crystal Structure Of The Ecoli Clamp Loader Bound To Primer-template Dna Length = 395

Iteration: 1
 Score = 70.5 bits (171), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 60/236 (25%), Positives = 106/236 (44%), Gaps = 31/236 (13%)
Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
           K+RP+T  DV+ Q+ V++ L   LS   + H +LF G  G GKTS            T I
Sbjct: 31  KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 90
Query: 85  AACHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
            A      D  RE        ++E++A+    ++  RD +       A G          
Sbjct: 91  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGR--------- 141
Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
           FK+ ++DE   ++  +  AL +T+E+  +  +F L       +   + SRC +F  K L 
Sbjct: 142 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALD 201
Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN 253
              +  +L++I  +E +  + +AL+ L   + G +R A++       +  G+G V+
Sbjct: 202 VEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQA--IASGDGQVS 255

>pdb|1XXI|B Chain B, Adp Bound E. Coli Clamp Loader Complex Length = 368

Iteration: 1
 Score = 70.5 bits (171), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 60/236 (25%), Positives = 106/236 (44%), Gaps = 31/236 (13%)
Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
           K+RP+T  DV+ Q+ V++ L   LS   + H +LF G  G GKTS            T I
Sbjct: 9   KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 68
Query: 85  AACHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
            A      D  RE        ++E++A+    ++  RD +       A G          
Sbjct: 69  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGR--------- 119
Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
           FK+ ++DE   ++  +  AL +T+E+  +  +F L       +   + SRC +F  K L 
Sbjct: 120 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALD 179
Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN 253
              +  +L++I  +E +  + +AL+ L   + G +R A++       +  G+G V+
Sbjct: 180 VEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQA--IASGDGQVS 233

>pdb|3GLG|B Chain B, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp Loader Bound To Primer-Template Dna Length = 395

Iteration: 1
 Score = 70.1 bits (170), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 60/236 (25%), Positives = 106/236 (44%), Gaps = 31/236 (13%)
Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
           K+RP+T  DV+ Q+ V++ L   LS   + H +LF G  G GKTS            T I
Sbjct: 31  KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 90
Query: 85  AACHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
            A      D  RE        ++E++A+    ++  RD +       A G          
Sbjct: 91  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGR--------- 141
Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
           FK+ ++DE   ++  +  AL +T+E+  +  +F L       +   + SRC +F  K L 
Sbjct: 142 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATADPQKLPVTILSRCLQFHLKALD 201
Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN 253
              +  +L++I  +E +  + +AL+ L   + G +R A++       +  G+G V+
Sbjct: 202 VEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQA--IASGDGQVS 255

>pdb|1NJG|A Chain A, Nucleotide-Free Form Of An Isolated E. Coli Clamp Loader Gamma Subunit Length = 250

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 57/220 (25%), Positives = 100/220 (45%), Gaps = 29/220 (13%)
Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
           K+RP+T  DV+ Q+ V++ L   LS   + H +LF G  G GKTS            T I
Sbjct: 16  KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 75
Query: 85  AACHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
            A      D  RE        ++E++A+    ++  RD +       A G          
Sbjct: 76  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARG---------R 126
Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
           FK+ ++DE   ++  +  AL +T+E+  +  +F L       +   + SRC +F  K L 
Sbjct: 127 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALD 186
Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAIT 237
              +  +L++I  +E +  + +AL+ L   + G +R A++
Sbjct: 187 VEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALS 226

>pdb|1SXJ|A Chain A, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 516

Iteration: 1
 Score = 69.3 bits (168), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 71/282 (25%), Positives = 118/282 (41%), Gaps = 44/282 (15%)
Query: 35  WVEKYRPKTIDDVIEQQEVVSVLKKCLS-------------GAD----LPHFLFYGPPGT 77
           W  KY P  +  V   +  V  LK  L+             G D        + YGPPG 
Sbjct: 29  WTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGI 88
Query: 78  GKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT---------FAQQTASGF 128
           GKT+       +L  D     ILE NASD R   ++   VK          + +      
Sbjct: 89  GKTTAAHLVAQELGYD-----ILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQ 143
Query: 129 NQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK-STRFCLICNYVSCI-IQPLTS 186
           N +GK      ++I+DE D M+   +  + +  +   K ST   LICN  +   ++P   
Sbjct: 144 NLNGKHF----VIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDR 199
Query: 187 RCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK 246
            C   +F+    N++ +RL  I  +E    D   ++ L++T+ GD+R+ I  L + +   
Sbjct: 200 VCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTISTTT 259
Query: 247 GGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLI 288
                 +E++ E++    K W EK + +  F +  K ++  I
Sbjct: 260 KTIN--HENINEIS----KAW-EKNIALKPFDIAHKMLDGQI 294

>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli Mgsa Length = 447

Iteration: 1
 Score = 45.8 bits (107), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 51/221 (23%), Positives = 88/221 (39%), Gaps = 27/221 (12%)
Query: 34  PWVEKYRPKTIDDVIEQQEVVSV---LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL 90
           P   + RP+ +   I QQ +++    L + +    L   + +GPPGTGKT+  +A     
Sbjct: 15  PLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTT--LAEVIAR 72
Query: 91  FGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT 150
           + +   ERI  + +    G++ IR+ ++   Q   +G            I+ +DE     
Sbjct: 73  YANADVERISAVTS----GVKEIREAIERARQNRNAGRR---------TILFVDEVHRFN 119
Query: 151 HAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE 210
            + Q A    +E  T +       N    +   L SR   +  K L+   +   L    E
Sbjct: 120 KSQQDAFLPHIEDGTITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQVLTQAME 179
Query: 211 --------QESVMCDFKALETLVETSGGDMRRAITCLQSCA 243
                   Q+ V+ D +    + E   GD RRA+  L+  A
Sbjct: 180 DKTRGYGGQDIVLPD-ETRRAIAELVNGDARRALNTLEMMA 219

>pdb|1IXR|C Chain C, Ruva-Ruvb Complex Length = 312

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTSTMIAACHQL 90
          RPKT+D+ I Q+ +   L+  L  A      L H L +GPPG GKT+      H+L
Sbjct: 7  RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL 62

>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii Length = 318

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTSTMIAACHQL 90
          RPKT+D+ I Q+ +   L+  L  A      L H L +GPPG GKT+      H+L
Sbjct: 7  RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL 62

>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8 Length = 324

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTSTMIAACHQL 90
          RPKT+D+ I Q+ +   L+  L  A      L H L +GPPG GKT+      H+L
Sbjct: 7  RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL 62

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	456
2chq_A	319	Replication factor C small subunit; DNA-binding pr	1e-129
2chq_A	319	Replication factor C small subunit; DNA-binding pr	3e-27
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	1e-129
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	1e-30
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	1e-128
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	5e-27
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	1e-127
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	3e-29
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	1e-126
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	7e-28
2chg_A	226	Replication factor C small subunit; DNA-binding pr	1e-123
2chg_A	226	Replication factor C small subunit; DNA-binding pr	5e-08
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	1e-105
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	8e-26
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	1e-102
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	2e-21
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	2e-98
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	5e-11
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	4e-24
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	6e-24
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	7e-23
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-18
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
3pvs_A	447	Replication-associated recombination protein A; ma	2e-14
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	1e-13
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	8e-13
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	1e-10
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	1e-08
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	2e-07
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	4e-06
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	4e-06
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	5e-06
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	8e-06
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	9e-05
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	5e-04

>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 =  376 bits (968), Expect = e-129
 Identities = 125/305 (40%), Positives = 178/305 (58%), Gaps = 19/305 (6%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD 93
            WVEKYRP+T+D+V+ Q EV+  LK  +   ++PH LF GPPGTGKT+T IA    LFG+
Sbjct: 6   IWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGE 65

Query: 94  MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA 153
            +R+  +E+NASD+RGI V+R K+K FA+              PFKI+ LDEAD++T  A
Sbjct: 66  NWRDNFIEMNASDERGIDVVRHKIKEFARTAPI-------GGAPFKIIFLDEADALTADA 118

Query: 154 QAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQES 213
           QAALRRTME  +KS RF L CNYVS II+P+ SRC+ FRFKP+ +  M  RL  ICE+E 
Sbjct: 119 QAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEG 178

Query: 214 VMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLK 273
           V      LE L+  SGGD R+AI  LQ  A    GE +  + + ++T       + +L++
Sbjct: 179 VKITEDGLEALIYISGGDFRKAINALQGAAA--IGEVVDADTIYQITATARPEEMTELIQ 236

Query: 274 V---DSFQVLEKYIEDLILEA-YSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETS 329
                +F    + ++ L++E   S   +  Q    ++ +  + D  K   + ++ L E  
Sbjct: 237 TALKGNFMEARELLDRLMVEYGMSGEDIVAQLFREII-SMPIKDSLKV--QLIDKLGEV- 292

Query: 330 GGDMR 334
             D R
Sbjct: 293 --DFR 295

>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 =  110 bits (276), Expect = 3e-27
 Identities = 35/129 (27%), Positives = 63/129 (48%), Gaps = 7/129 (5%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---D 376
             LE L+  SGGD R+AI  LQ  A    GE +  + + ++T       + +L++     
Sbjct: 184 DGLEALIYISGGDFRKAINALQGAAA--IGEVVDADTIYQITATARPEEMTELIQTALKG 241

Query: 377 SFQVLEKYIEDLILEA-YSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGA 435
           +F    + ++ L++E   S   +  Q    ++S   + D  K  +++KL E + RL +GA
Sbjct: 242 NFMEARELLDRLMVEYGMSGEDIVAQLFREIIS-MPIKDSLKVQLIDKLGEVDFRLTEGA 300

Query: 436 SEYIQILDL 444
           +E IQ+   
Sbjct: 301 NERIQLDAY 309

>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 Length = 323

 Score =  375 bits (965), Expect = e-129
 Identities = 107/309 (34%), Positives = 169/309 (54%), Gaps = 14/309 (4%)

Query: 27  KTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAA 86
           KT +  +PWVEKYRP+ + D++  +E +  L++     ++PH +  G PG GKT+++   
Sbjct: 3   KTLSLQLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCL 62

Query: 87  CHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA 146
            H+L G  Y + +LELNASDDRGI V+R+++K FAQ+          P    KIVILDEA
Sbjct: 63  AHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLH------LPPGKHKIVILDEA 116

Query: 147 DSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQ 206
           DSMT  AQ ALRRTME  + STRF   CN  + II+PL S+C+  R+  L++  +L RL 
Sbjct: 117 DSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLL 176

Query: 207 YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKP 266
            I + E V      LE ++ T+ GDMR+AI  LQS     G   +  ++V ++       
Sbjct: 177 QIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVA--GHGLVNADNVFKIVDSPHPL 234

Query: 267 WIEKLLKVDSFQ-VLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETL 325
            ++K+L   + +  ++    DL  + YS+  +      +    + + +  +   + ++ +
Sbjct: 235 IVKKMLLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRL--EMIKEI 292

Query: 326 VETSGGDMR 334
             T    MR
Sbjct: 293 GLT---HMR 298

>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 Length = 323

 Score =  119 bits (301), Expect = 1e-30
 Identities = 27/137 (19%), Positives = 65/137 (47%), Gaps = 3/137 (2%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQ 379
             LE ++ T+ GDMR+AI  LQS     G   +  ++V ++        ++K+L   + +
Sbjct: 189 DGLEAIIFTAEGDMRQAINNLQSTVA--GHGLVNADNVFKIVDSPHPLIVKKMLLASNLE 246

Query: 380 -VLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEY 438
             ++    DL  + YS+  +      +  + + + +  +  +++++   + R+ +G   Y
Sbjct: 247 DSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVGTY 306

Query: 439 IQILDLGSIVIKANKTA 455
           +Q+  + + + K N  A
Sbjct: 307 LQLASMLAKIHKLNNKA 323

>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 Length = 327

 Score =  373 bits (959), Expect = e-128
 Identities = 116/297 (39%), Positives = 168/297 (56%), Gaps = 14/297 (4%)

Query: 27  KTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAA 86
           + +    PWVEKYRP+ +DD++ Q+ +V  LK  +    +PH LF GPPG GKT+  +A 
Sbjct: 7   EVKVLEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALAL 66

Query: 87  CHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA 146
             +LFG+ +R   LELNASD+RGI VIR+KVK FA+               FKI+ LDEA
Sbjct: 67  ARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPI-------GGASFKIIFLDEA 119

Query: 147 DSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQ 206
           D++T  AQ ALRRTME  + + RF L CNY S II+P+ SRC+ FRF+PL +  +  RL+
Sbjct: 120 DALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLR 179

Query: 207 YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKP 266
           YI E E +    + L+ ++  + GDMRRAI  LQ+ A     + I +E+V  V       
Sbjct: 180 YIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAA--LDKKITDENVFMVASRARPE 237

Query: 267 WIEKLLKV----DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALF 319
            I +++ +    +  +  EK  E L+ +  S   +  Q H  V     + + +K L 
Sbjct: 238 DIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVF-NLPIEEPKKVLL 293

>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 Length = 327

 Score =  109 bits (275), Expect = 5e-27
 Identities = 38/138 (27%), Positives = 67/138 (48%), Gaps = 7/138 (5%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV---- 375
           + L+ ++  + GDMRRAI  LQ+ A     + I +E+V  V        I +++ +    
Sbjct: 192 EGLQAILYIAEGDMRRAINILQAAAA--LDKKITDENVFMVASRARPEDIREMMLLALKG 249

Query: 376 DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGA 435
           +  +  EK  E L+ +  S   +  Q H  V +   + + +K L+ +K+ E N RL +GA
Sbjct: 250 NFLKAREKLREILLKQGLSGEDVLVQMHKEVFN-LPIEEPKKVLLADKIGEYNFRLVEGA 308

Query: 436 SEYIQILDLGSIVIKANK 453
           +E IQ+  L +      K
Sbjct: 309 NEIIQLEALLAQFTLIGK 326

>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 Length = 353

 Score =  371 bits (955), Expect = e-127
 Identities = 143/315 (45%), Positives = 200/315 (63%), Gaps = 11/315 (3%)

Query: 14  APSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYG 73
            P+  +     + +      PWVEKYRPK +D+V  Q   V+VLKK L  A+LPH LFYG
Sbjct: 6   GPNKKRKISKLAAEQSLAQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYG 65

Query: 74  PPGTGKTSTMIAACHQLFG-DMYRERILELNASDDRGIQVIRDKVKTFAQ---QTASGFN 129
           PPGTGKTST++A   +L+G D+ + RILELNASD+RGI ++R+KVK FA+      S  +
Sbjct: 66  PPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHD 125

Query: 130 QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCS 189
            +  PCPP+KI+ILDEADSMT  AQ+ALRRTME  +  TRFCLICNYV+ II PL S+CS
Sbjct: 126 LENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCS 185

Query: 190 KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR----L 245
           KFRFK L  +  + RL++I EQE+V CD   LE +++ S GD+RR IT LQS ++    L
Sbjct: 186 KFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYL 245

Query: 246 KGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFH 302
             G+ I +  V E+ GV+P   + ++++      F  ++KY+   +   +SA  + +Q H
Sbjct: 246 GDGKNITSTQVEELAGVVPHDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLH 305

Query: 303 DIVMLASSLSDKQKA 317
           +  +   +     K 
Sbjct: 306 EYYITNDNFDTNFKN 320

>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 Length = 353

 Score =  116 bits (292), Expect = 3e-29
 Identities = 38/132 (28%), Positives = 72/132 (54%), Gaps = 7/132 (5%)

Query: 320 KALETLVETSGGDMRRAITCLQSCAR----LKGGEGIVNEDVLEVTGVIPNPWIEKLLKV 375
             LE +++ S GD+RR IT LQS ++    L  G+ I +  V E+ GV+P+  + ++++ 
Sbjct: 215 GVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGVVPHDILIEIVEK 274

Query: 376 ---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQ 432
                F  ++KY+   +   +SA  + +Q H+  ++  +     K  I   L   ++RL 
Sbjct: 275 VKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWLLFTTDSRLN 334

Query: 433 DGASEYIQILDL 444
           +G +E+IQ+L+L
Sbjct: 335 NGTNEHIQLLNL 346

>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 Length = 340

 Score =  369 bits (948), Expect = e-126
 Identities = 110/319 (34%), Positives = 174/319 (54%), Gaps = 19/319 (5%)

Query: 23  STSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTST 82
           +++ K   + +PWVEKYRP+T+D+V  Q EV++ ++K +    LPH LFYGPPGTGKTST
Sbjct: 3   TSTEKRSKENLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTST 62

Query: 83  MIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVI 142
           ++A   +++G  Y   +LELNASDDRGI V+R+++K FA                FK++I
Sbjct: 63  IVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFASTRQI-------FSKGFKLII 115

Query: 143 LDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTML 202
           LDEAD+MT+AAQ ALRR +E+ TK+TRFC++ NY   +   L S+C++FRF+PL +  + 
Sbjct: 116 LDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIE 175

Query: 203 TRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKG---GEGIVNEDVLEV 259
            R+  +   E +     A + L+E S GDMRR +  LQSC         + I ++ + E 
Sbjct: 176 RRIANVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYEC 235

Query: 260 TGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEA-YSATQLFDQFHDIVMLASSLSDKQ 315
            G      ++ +LK    D +      +  +      +   L +    I+      +++ 
Sbjct: 236 CGAPRPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEET 295

Query: 316 KALFKALETLVETSGGDMR 334
           +     L  L +    +  
Sbjct: 296 RV--HLLTKLADI---EYS 309

>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 Length = 340

 Score =  112 bits (282), Expect = 7e-28
 Identities = 28/139 (20%), Positives = 56/139 (40%), Gaps = 7/139 (5%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARLKG---GEGIVNEDVLEVTGVIPNPWIEKLLKV- 375
            A + L+E S GDMRR +  LQSC         + I ++ + E  G      ++ +LK  
Sbjct: 192 NAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRPSDLKAVLKSI 251

Query: 376 --DSFQVLEKYIEDLILEA-YSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQ 432
             D +      +  +      +   L +    I+      +++ +  +L KLA+    + 
Sbjct: 252 LEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYSIS 311

Query: 433 DGASEYIQILDLGSIVIKA 451
            G ++ IQ   +   +  +
Sbjct: 312 KGGNDQIQGSAVIGAIKAS 330

>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 =  357 bits (918), Expect = e-123
 Identities = 113/229 (49%), Positives = 148/229 (64%), Gaps = 9/229 (3%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD 93
            WVEKYRP+T+D+V+ Q EV+  LK  +   ++PH LF GPPGTGKT+T IA    LFG+
Sbjct: 6   IWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGE 65

Query: 94  MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA 153
            +R+  +E+NASD+RGI V+R K+K FA+              PFKI+ LDEAD++T  A
Sbjct: 66  NWRDNFIEMNASDERGIDVVRHKIKEFARTAPI-------GGAPFKIIFLDEADALTADA 118

Query: 154 QAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQES 213
           QAALRRTME  +KS RF L CNYVS II+P+ SRC+ FRFKP+ +  M  RL  ICE+E 
Sbjct: 119 QAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEG 178

Query: 214 VMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGV 262
           V      LE L+  SGGD R+AI  LQ  A    GE +  + + ++T  
Sbjct: 179 VKITEDGLEALIYISGGDFRKAINALQGAAA--IGEVVDADTIYQITAT 225

>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 = 52.6 bits (127), Expect = 5e-08
 Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGV 363
             LE L+  SGGD R+AI  LQ  A    GE +  + + ++T  
Sbjct: 184 DGLEALIYISGGDFRKAINALQGAAA--IGEVVDADTIYQITAT 225

>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 Length = 354

 Score =  315 bits (809), Expect = e-105
 Identities = 82/319 (25%), Positives = 146/319 (45%), Gaps = 33/319 (10%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLS-GADLPHFLFYGPPGTGKTSTMIAACHQLFG 92
            WV+KYRPK+++ +   +E+ + LK       DLPH L YGP GTGK +  +A    +FG
Sbjct: 3   LWVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFG 62

Query: 93  D------------------------MYRERILELNASDDRGI--QVIRDKVKTFAQ-QTA 125
                                    +     LE+  SD       VI++ +K  AQ +  
Sbjct: 63  PGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV 122

Query: 126 SGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLT 185
              +        +K VI++EA+S+T  AQAALRRTMEK +K+ R  ++C+ +S II P+ 
Sbjct: 123 DFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIK 182

Query: 186 SRCSKFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGGDMRRAITCLQSCAR 244
           S+C   R    +++ + T L  +   E +  + K  L+ + + S G++R ++  L+S A 
Sbjct: 183 SQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMAL 242

Query: 245 LKGGEGIVNEDVLEVT-GVIPKPWIEKLLK---VDSFQVLEKYIEDLILEAYSATQLFDQ 300
                   +  +++    ++      K++K   V+S       + DL+     A  +  +
Sbjct: 243 NNELALKSSSPIIKPDWIIVIHKLTRKIVKERSVNSLIECRAVLYDLLAHCIPANIILKE 302

Query: 301 FHDIVMLASSLSDKQKALF 319
               ++   +L+   K+  
Sbjct: 303 LTFSLLDVETLNTTNKSSI 321

>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 Length = 354

 Score =  106 bits (267), Expect = 8e-26
 Identities = 22/135 (16%), Positives = 55/135 (40%), Gaps = 4/135 (2%)

Query: 321 ALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT-GVIPNPWIEKLLK---VD 376
            L+ + + S G++R ++  L+S A         +  +++    ++ +    K++K   V+
Sbjct: 218 ILKRIAQASNGNLRVSLLMLESMALNNELALKSSSPIIKPDWIIVIHKLTRKIVKERSVN 277

Query: 377 SFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGAS 436
           S       + DL+     A  +  +    ++   +L+   K+ I+E  +  + RL  G  
Sbjct: 278 SLIECRAVLYDLLAHCIPANIILKELTFSLLDVETLNTTNKSSIIEYSSVFDERLSLGNK 337

Query: 437 EYIQILDLGSIVIKA 451
               +    + V+  
Sbjct: 338 AIFHLEGFIAKVMCC 352

>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* Length = 324

 Score =  306 bits (787), Expect = e-102
 Identities = 77/306 (25%), Positives = 127/306 (41%), Gaps = 39/306 (12%)

Query: 15  PSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGP 74
           P  S  +V+       K     +KYRP TID+ I         K   S   +PH + + P
Sbjct: 2   PGGSMITVN------EKEHILEQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSP 55

Query: 75  -PGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK 133
            PGTGKT+   A CH +  DM     + +N SD + I  +R  +  FA   +        
Sbjct: 56  SPGTGKTTVAKALCHDVNADM-----MFVNGSDCK-IDFVRGPLTNFASAAS-------- 101

Query: 134 PCPPFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFR 192
                K++++DE D S    +Q  LR  ME  + +    +  N +  II+PL SRC    
Sbjct: 102 FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVIT 161

Query: 193 FKPLAE-------NTMLTRLQYICEQESV-MCDFKALETLVETSGGDMRRAITCLQSCAR 244
           F    +         M+ RL  IC+ E + + D K +  LV+ +  D R+ I  L S + 
Sbjct: 162 FGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDSYSS 221

Query: 245 LKGGEGIVNEDVLEVTGVIPKPWIEKL---LKVDSFQVLEKYIEDLILEA-YSATQLFDQ 300
               +G+++  +L +        I+ +   LK    + L         +  +   +L ++
Sbjct: 222 ----KGVLDAGILSLVTNDRGA-IDDVLESLKNKDVKQLRALAPKYAADYSWFVGKLAEE 276

Query: 301 FHDIVM 306
            +  V 
Sbjct: 277 IYSRVT 282

>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* Length = 324

 Score = 93.6 bits (233), Expect = 2e-21
 Identities = 20/128 (15%), Positives = 46/128 (35%), Gaps = 13/128 (10%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKL---LKVD 376
           K +  LV+ +  D R+ I  L S +     +G+++  +L +        I+ +   LK  
Sbjct: 196 KVVAALVKKNFPDFRKTIGELDSYSS----KGVLDAGILSLVTNDRGA-IDDVLESLKNK 250

Query: 377 SFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGAS 436
             + L              +    +  + +   S ++ +    + E + E N      A+
Sbjct: 251 DVKQLRALAPKYA---ADYSWFVGKLAEEIY--SRVTPQSIIRMYEIVGENNQYHGIAAN 305

Query: 437 EYIQILDL 444
             + +  L
Sbjct: 306 TELHLAYL 313

>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 =  303 bits (778), Expect = 2e-98
 Identities = 78/366 (21%), Positives = 133/366 (36%), Gaps = 50/366 (13%)

Query: 8   GKLGKDAPSSSKTSVSTSGKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGAD-- 65
           G        SS   V   G        W  KY P  +  V   +  V  LK  L+  +  
Sbjct: 2   GSSHHHHHHSSGLEVLFQGPHMASDKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENS 61

Query: 66  ---------------LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI 110
                              + YGPPG GKT+       +L        ILE NASD R  
Sbjct: 62  KKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GYDILEQNASDVRSK 116

Query: 111 QVIRDKVKTFAQQT-----ASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET 165
            ++   VK                +         ++I+DE D M+   +  + +  +   
Sbjct: 117 TLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR 176

Query: 166 KSTR-FCLICNYVSC-IIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALET 223
           K++    LICN  +   ++P    C   +F+    N++ +RL  I  +E    D   ++ 
Sbjct: 177 KTSTPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDR 236

Query: 224 LVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPK-----PW--IEKLLKVDS 276
           L++T+ GD+R+ I  L + +     + I +E++ E++    K     P+    K+L    
Sbjct: 237 LIQTTRGDIRQVINLLSTIS--TTTKTINHENINEISKAWEKNIALKPFDIAHKMLDGQI 294

Query: 277 FQVLEKY------IEDLILEAYSATQLFDQFHDIVMLASSLSDKQKAL---FKALETLVE 327
           +  +            L  + +  T L  Q + +    S L   Q  L    +A   +  
Sbjct: 295 YSDIGSRNFTLNDKIALYFDDFDFTPLMIQENYLSTRPSVLKPGQSHLEAVAEAANCI-- 352

Query: 328 TSGGDM 333
            S GD+
Sbjct: 353 -SLGDI 357

>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 = 63.4 bits (154), Expect = 5e-11
 Identities = 23/128 (17%), Positives = 49/128 (38%), Gaps = 17/128 (13%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG-----VIPNPW--IEKL 372
             ++ L++T+ GD+R+ I  L + +     + I +E++ E++      +   P+    K+
Sbjct: 232 NVIDRLIQTTRGDIRQVINLLSTIS--TTTKTINHENINEISKAWEKNIALKPFDIAHKM 289

Query: 373 LKVDSFQVLEKY------IEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAE 426
           L    +  +            L  + +  T L     +  +S      K     LE +AE
Sbjct: 290 LDGQIYSDIGSRNFTLNDKIALYFDDFDFTPLM--IQENYLSTRPSVLKPGQSHLEAVAE 347

Query: 427 CNARLQDG 434
               +  G
Sbjct: 348 AANCISLG 355

>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* Length = 250

 Score =   99 bits (250), Expect = 4e-24
 Identities = 60/254 (23%), Positives = 112/254 (44%), Gaps = 50/254 (19%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST--MIA--------- 85
           K+RP+T  DV+ Q+ V++ L   LS   + H +LF G  G GKTS   ++A         
Sbjct: 16  KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 75

Query: 86  ---------ACHQL----FGDMYRERILELNASDDRGIQVIR---DKVKTFAQQTASGFN 129
                     C ++    F D     ++E++A+    ++  R   D V+ +A        
Sbjct: 76  TATPCGVCDNCREIEQGRFVD-----LIEIDAASRTKVEDTRDLLDNVQ-YAPARG---- 125

Query: 130 QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLT--SR 187
                   FK+ ++DE   ++  +  AL +T+E+  +  +F L       +  P+T  SR
Sbjct: 126 -------RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKL--PVTILSR 176

Query: 188 CSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKG 247
           C +F  K L    +  +L++I  +E +  + +AL+ L   + G +R A++          
Sbjct: 177 CLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGD 236

Query: 248 GEGIVNEDVLEVTG 261
           G+ +  + V  + G
Sbjct: 237 GQ-VSTQAVSAMLG 249

>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* Length = 373

 Score =  101 bits (255), Expect = 6e-24
 Identities = 68/315 (21%), Positives = 127/315 (40%), Gaps = 73/315 (23%)

Query: 38  KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST--MIA--------- 85
           K+RP+T  DV+ Q+ V++ L   LS   + H +LF G  G GKTS   ++A         
Sbjct: 9   KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 68

Query: 86  ---------ACHQL----FGDMYRERILELNASDDRGIQVIR---DKVKTFAQQTASGFN 129
                     C ++    F D     ++E++A+    ++  R   D V+ +A        
Sbjct: 69  TATPCGVCDNCREIEQGRFVD-----LIEIDAASRTKVEDTRDLLDNVQ-YAPARG---- 118

Query: 130 QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCI-----IQ-- 182
                   FK+ ++DE   ++  +  AL +T+E E           +V  +      Q  
Sbjct: 119 -------RFKVYLIDEVHMLSRHSFNALLKTLE-EPPE--------HVKFLLATTDPQKL 162

Query: 183 PLT--SRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ 240
           P+T  SRC +F  K L    +  +L++I  +E +  + +AL+ L   + G +R A++   
Sbjct: 163 PVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTD 222

Query: 241 SCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV----DSFQVLEKYIEDLILEAYSATQ 296
                  G+ +  + V  + G +       L++     +  +V+   I +          
Sbjct: 223 QAIASGDGQ-VSTQAVSAMLGTLDDDQALSLVEAMVEANGERVMAL-INEAAARGIEWEA 280

Query: 297 LFDQ----FHDIVML 307
           L  +     H I M+
Sbjct: 281 LLVEMLGLLHRIAMV 295

>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* Length = 334

 Score = 97.9 bits (244), Expect = 7e-23
 Identities = 56/313 (17%), Positives = 89/313 (28%), Gaps = 57/313 (18%)

Query: 50  QQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST--MIA------------------ACH 88
            +     L          H  L    PG G  +    ++                   C 
Sbjct: 7   LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQ 66

Query: 89  QL----FGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILD 144
            +      D Y   +      +  G+  +R+ V     + A    + G      K+V + 
Sbjct: 67  LMQAGTHPDYYT--LAPEKGKNTLGVDAVRE-VTEKLNEHA----RLGG----AKVVWVT 115

Query: 145 EADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTR 204
           +A  +T AA  AL +T+E+    T F L       ++  L SRC      P  E   +T 
Sbjct: 116 DAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTW 175

Query: 205 LQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIP 264
           L        V     AL   +  S G    A+   Q                  +   +P
Sbjct: 176 L-----SREVTMSQDALLAALRLSAGSPGAALALFQG-----DNWQARETLCQALAYSVP 225

Query: 265 KPWIEKLLKV-------DSFQVLEKYIEDLILEAYSATQLF--DQFHDIVMLASSLSDKQ 315
                 LL              L   + D +   + A Q+   D    +  LA+ LS   
Sbjct: 226 SGDWYSLLAALNHEQAPARLHWLATLLMDALKRHHGAAQVTNVDVPGLVAELANHLS--P 283

Query: 316 KALFKALETLVET 328
             L   L  +   
Sbjct: 284 SRLQAILGDVCHI 296

>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 = 85.7 bits (211), Expect = 8e-18
 Identities = 67/465 (14%), Positives = 134/465 (28%), Gaps = 132/465 (28%)

Query: 20  TSVSTSGKTRNKPVPWVEKYRPKTIDDV-------IEQQEVVSVLKKCLSGADLPHFLF- 71
           + + T  +  +       + R +  +D        + + +    L++ L        +  
Sbjct: 96  SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI 155

Query: 72  YGPPGTGKTSTMIAAC-----HQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTAS 126
            G  G+GKT   +  C               +I  LN  +    + + + ++    Q   
Sbjct: 156 DGVLGSGKTWVALDVCLSYKVQCKMDF----KIFWLNLKNCNSPETVLEMLQKLLYQIDP 211

Query: 127 GFNQ--DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLI-----CNYVSC 179
            +    D       +I          H+ QA LRR ++   K    CL+      N  + 
Sbjct: 212 NWTSRSDHSSNIKLRI----------HSIQAELRRLLKS--KPYENCLLVLLNVQN--AK 257

Query: 180 IIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL 239
                   C     K L    + TR       + V  DF +  T    S       +T  
Sbjct: 258 AWNAFNLSC-----KIL----LTTR------FKQVT-DFLSAATTTHISLDHHSMTLT-- 299

Query: 240 QSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFD 299
                         ++V  +           LLK      L+   +DL  E  +      
Sbjct: 300 -------------PDEVKSL-----------LLK-----YLDCRPQDLPREVLTTNPRR- 329

Query: 300 QFHDIVMLASSLSDK-------QKALFKALETLVETS-----GGDMRRAITCLQSCARLK 347
               + ++A S+ D        +      L T++E+S       + R+        +   
Sbjct: 330 ----LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK---MFDRLS--- 379

Query: 348 GGEGIVNEDVLEVTGVIPNP-----WIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQF 402
               +           IP       W + ++K D   V+ K  +  ++E           
Sbjct: 380 ----VFPPSAH-----IPTILLSLIWFD-VIKSDVMVVVNKLHKYSLVEKQPKESTI-SI 428

Query: 403 HDIVMSASSLSDKQKAL---ILEKLA-----ECNARLQDGASEYI 439
             I +      + + AL   I++        + +  +     +Y 
Sbjct: 429 PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYF 473

>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 = 43.7 bits (102), Expect = 1e-04
 Identities = 55/375 (14%), Positives = 107/375 (28%), Gaps = 115/375 (30%)

Query: 17  SSKTSVSTSGKTRNKPVP---WVEKYRPKTIDDV---IEQQEVVSVLKKCL--SGADLP- 67
           S K  + T   TR K V            ++D     +   EV S+L K L     DLP 
Sbjct: 265 SCKILL-T---TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR 320

Query: 68  ----------------------HFLFYGPPGTGKTSTMIAAC-HQLFGDMYRERILELNA 104
                                  +  +      K +T+I +  + L    YR+    L+ 
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380

Query: 105 -SDDRGI--QVI----RDKVKTFAQQTASGF------NQDGKPCPPFKIVILDEADSMTH 151
                 I   ++     D +K+      +         +  K      I I         
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE---STISI--------P 429

Query: 152 AAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQY---I 208
           +    L+  +E E    R  ++ +Y         +  S     P  +    + + +    
Sbjct: 430 SIYLELKVKLENEYALHR-SIVDHY-----NIPKTFDSDDLIPPYLDQYFYSHIGHHLKN 483

Query: 209 CEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWI 268
            E    M  F+ +         D R     L+     K          +         W 
Sbjct: 484 IEHPERMTLFRMVFL-------DFR----FLEQ----K----------IRHDST---AWN 515

Query: 269 EKLLKVDSFQVLEKY--------------IEDLI--LEAYSATQLFDQFHDIVMLASSLS 312
                +++ Q L+ Y              +  ++  L       +  ++ D++ +A  L 
Sbjct: 516 ASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIA--LM 573

Query: 313 DKQKALFKALETLVE 327
            + +A+F+     V+
Sbjct: 574 AEDEAIFEEAHKQVQ 588

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 73.7 bits (182), Expect = 2e-14
 Identities = 52/254 (20%), Positives = 99/254 (38%), Gaps = 47/254 (18%)

Query: 28  TRNKPVPWVEKYRPKTIDDVIEQQEVV---SVLKKCLSGADLPHFLFYGPPGTGKTSTMI 84
           + N   P   + RP+ +   I QQ ++     L + +    L   + +GPPGTGKT+  +
Sbjct: 9   SDNTFQPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTT--L 66

Query: 85  AACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILD 144
           A   ++        +  ++A    G++ IR+ ++  A+Q        G+      I+ +D
Sbjct: 67  A---EVIARYANADVERISAVTS-GVKEIREAIER-ARQNR----NAGRRT----ILFVD 113

Query: 145 EADSMTH----AAQAALRRTMEKETKSTRFCLIC----N-YVSCIIQPLTSRCSKFRFKP 195
           E     H    + Q A    +E  T       I     N     +   L SR   +  K 
Sbjct: 114 E----VHRFNKSQQDAFLPHIEDGT----ITFIGATTENPSFE-LNSALLSRARVYLLKS 164

Query: 196 LAEN---TMLTRLQYICEQ----ESVMCDFKALETLVETSGGDMRRAITCLQSCARL--- 245
           L+      +LT+      +    + ++   +    + E   GD RRA+  L+  A +   
Sbjct: 165 LSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEMMADMAEV 224

Query: 246 -KGGEGIVNEDVLE 258
              G+ ++  ++L 
Sbjct: 225 DDSGKRVLKPELLT 238

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D* Length = 368

 Score = 71.1 bits (174), Expect = 1e-13
 Identities = 50/321 (15%), Positives = 88/321 (27%), Gaps = 83/321 (25%)

Query: 42  KTIDDVIEQQEVVSVLKKCL----SGADLPH-FLFYGPPGTGKTSTMIA-----ACHQLF 91
           +    ++ Q          L     G       L  G PGTGKT+  +           F
Sbjct: 41  QASQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPF 100

Query: 92  G-------------------------------------------DMYRERILELNASDDR 108
                                                       D+   R     A    
Sbjct: 101 TAIAGSEIFSLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSG 160

Query: 109 GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKST 168
               I+ +V+       + + ++GK      ++ +DE   +   + + L R +E    + 
Sbjct: 161 DTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVHMLDIESFSFLNRALE-SDMAP 219

Query: 169 RFCLICNYVSCIIQ----------PLT--SRCSKFRFKPLAENTMLTRLQYICEQESVMC 216
              +  N     I+          P+    R       P +E      L+  CE+E V  
Sbjct: 220 VLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEM 279

Query: 217 DFKALETLVETSG-GDMRRAI---TCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLL 272
              A   L        +R AI   T      R + G  +  +D+  V            L
Sbjct: 280 SEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYS----------L 329

Query: 273 KVD---SFQVLEKYIEDLILE 290
            +D   S Q +++Y +  +  
Sbjct: 330 FLDESRSTQYMKEYQDAFLFN 350

>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} Length = 384

 Score = 68.6 bits (167), Expect = 8e-13
 Identities = 44/285 (15%), Positives = 86/285 (30%), Gaps = 32/285 (11%)

Query: 49  EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRE----------- 97
             ++    ++  +        LF G  GTGKT       +++      +           
Sbjct: 28  ILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYV 87

Query: 98  RILELNASDDRGIQVIRDKV------KTFAQQTASGFNQDGKPCPPFKIVILDEADSM-- 149
              E+  +    +  +  K+      K                     I+ LDE D++  
Sbjct: 88  NCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVK 147

Query: 150 THAAQAALRRTMEKETKSTRFCLICN---YVSCIIQPLTSRCSK-FRFKPLAENTMLTRL 205
                  L + +  +   +   +I N       +   + S       FKP     +   L
Sbjct: 148 RRGGDIVLYQLLRSDANIS-VIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFIL 206

Query: 206 QYICEQ--ESVMCDFKALETL---VETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT 260
               E        D + L  +        GD R+A+  L   A+L  G GI+ ++   V 
Sbjct: 207 SKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGIIRKE--HVD 264

Query: 261 GVIPKPWIEKLLKV-DSFQVLEKYIEDLILEAYSATQLFDQFHDI 304
             I     E+L++   +     K     ++E+         + D+
Sbjct: 265 KAIVDYEQERLIEAVKALPFHYKLALRSLIESEDVMSAHKMYTDL 309

>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 Length = 389

 Score = 62.1 bits (150), Expect = 1e-10
 Identities = 64/390 (16%), Positives = 120/390 (30%), Gaps = 54/390 (13%)

Query: 39  YRPKTI---DDVIEQQEVVSVLKKCL--SGADLPHFLFYGPPGTGKTSTMIAACHQLFGD 93
           Y PK +   +   + Q++  +L   L   G   P     G PGTGKT T+         D
Sbjct: 14  YVPKRLPHREQ--QLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY-KD 70

Query: 94  MYRERILELNASDDRGI-QVIRDKVKTFAQQTASG----------FNQDGKPCPPFKIVI 142
               R + +N    R    +I +  ++                    +  +    +  ++
Sbjct: 71  KTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLV 130

Query: 143 LDEADSMTHAAQAALRRTMEK--ETKSTRFCLIC-----NYVSCIIQPLTSRCS--KFRF 193
           LD+A ++     +   R  ++  +  + R  L+        ++ +             RF
Sbjct: 131 LDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRF 190

Query: 194 KPLAENT----MLTRLQYICEQESV-------MCDFKALETLVETSGGDMRRAITCLQSC 242
            P  ++     +L R +    + S        + D    +T ++T+ GD R AI  L   
Sbjct: 191 SPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRS 250

Query: 243 ARLKGGEGIVNEDVLEVTGVIPKPWIEKLLK-VDSFQVLEKYIEDLILEAYSATQLFDQF 301
           A      G  +    +V     +       + +    + EK    L L A   +      
Sbjct: 251 AYAAQQNGRKHIAPEDVRKSSKEVLFGISEEVLIGLPLHEK----LFLLAIVRSLKISHT 306

Query: 302 HDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT 361
             I               ++ + + E  G   R           L   +GIV     +  
Sbjct: 307 PYITF---------GDAEESYKIVCEEYGERPRVHSQLWSYLNDL-REKGIVETRQNKRG 356

Query: 362 GVIPNPWIEKLLKVDSFQVLEKYIEDLILE 391
             +        +  +    LE  I  LI E
Sbjct: 357 EGVRGRTTLISIGTEPLDTLEAVITKLIKE 386

>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 Length = 305

 Score = 55.5 bits (134), Expect = 1e-08
 Identities = 49/317 (15%), Positives = 106/317 (33%), Gaps = 71/317 (22%)

Query: 50  QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRER-------ILEL 102
            ++ +  LK+ +  ++    L  G   +           +L    Y E+       +LE+
Sbjct: 2   AKDQLETLKRIIEKSEGISILINGEDLSYPRE----VSLEL--PEYVEKFPPKASDVLEI 55

Query: 103 N-ASDDRGIQVIR---DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALR 158
           +   ++ GI  IR   D +  ++ +  +            K VI+ + + MT  A  A  
Sbjct: 56  DPEGENIGIDDIRTIKDFLN-YSPELYT-----------RKYVIVHDCERMTQQAANAFL 103

Query: 159 RTMEKETKSTRFCL-------ICNYVSCIIQPLT--SRCSKFR------FKPLAENTMLT 203
           + +E+  +     L       +           T  SR  +        F+ L +  +  
Sbjct: 104 KALEEPPEYAVIVLNTRRWHYL---------LPTIKSRVFRVVVNVPKEFRDLVKEKIGD 154

Query: 204 RLQYICE-QESVMCDFKALETLVETSGGDMRRAITCLQSCARLK-----GGEGIVN-EDV 256
             + +   +       +A +   E   G +  ++  L++   LK     G EG +   ++
Sbjct: 155 LWEELPLLERDFKTALEAYKLGAEKLSG-LMESLKVLETEKLLKKVLSKGLEGYLACREL 213

Query: 257 LEVTGVIPKPWIEKLLK--------VDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLA 308
           LE    +       L           D+F ++++     I+   +  +  +    +  L 
Sbjct: 214 LERFSKVESKEFFALFDQVTNTITGKDAFLLIQRLTR--IILHENTWESVEDQKSVSFLD 271

Query: 309 SSLSDKQKALFKALETL 325
           S L  K   L   L  +
Sbjct: 272 SILRVKIANLNNKLTLM 288

>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} Length = 386

 Score = 51.6 bits (123), Expect = 2e-07
 Identities = 42/296 (14%), Positives = 94/296 (31%), Gaps = 32/296 (10%)

Query: 49  EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRE-RILELNA--- 104
           + +++ S+L          +   YG  GTGKT+ +     +L      + + + +N    
Sbjct: 28  QIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQI 87

Query: 105 -SDDRGIQVI----RDKVKTFAQQTASGFNQDGKPCPPFK---IVILDEADSM-THAAQA 155
            +  R +  +      KV       A  + +  K    +    +++LDE D+        
Sbjct: 88  DTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDD 147

Query: 156 ALRR--TMEKETKSTRFCLIC-----NYVSCIIQPLTSRCSKFR--FKPLAENTMLTRLQ 206
            L +   +  E   ++   I       +V  +   + S  S+    F P     +   L 
Sbjct: 148 ILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILT 207

Query: 207 YICEQ--ESVMCDFKALETL---VETSGGDMRRAITCLQSCARL---KGGEGIVNEDVLE 258
              +   +  +     ++          GD RRA+  L+    +        +  E V  
Sbjct: 208 KRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMKDTKVKEEYVYM 267

Query: 259 VTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDK 314
               I +  +  ++    F    K +   ++   S   +      +     ++  K
Sbjct: 268 AKEEIERDRVRDIILTLPFH--SKLVLMAVVSISSEENVVSTTGAVYETYLNICKK 321

>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* Length = 324

 Score = 47.6 bits (114), Expect = 4e-06
 Identities = 22/53 (41%), Positives = 30/53 (56%), Gaps = 7/53 (13%)

Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKT--STMIA 85
          RPKT+D+ I Q+ +   L+  L  A      L H L +GPPG GKT  + +IA
Sbjct: 7  RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIA 59

>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* Length = 334

 Score = 47.6 bits (114), Expect = 4e-06
 Identities = 22/53 (41%), Positives = 28/53 (52%), Gaps = 7/53 (13%)

Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKT--STMIA 85
          RPK++D+ I Q+ V   L   L  A      L H L  GPPG GKT  + +IA
Sbjct: 20 RPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIA 72

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix} Length = 387

 Score = 47.5 bits (112), Expect = 5e-06
 Identities = 40/248 (16%), Positives = 72/248 (29%), Gaps = 39/248 (15%)

Query: 49  EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRE----RILELNA 104
           E + +  VL   L G    + L YG  GTGKT+       +L           + + +NA
Sbjct: 27  ELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNA 86

Query: 105 SDDRGIQVIRDK--------VKTFAQQTASGFNQDGKPCPPFK---IVILDEADSMTHAA 153
                   +           V          + +  K     +   I++LDE D +    
Sbjct: 87  RHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRP 146

Query: 154 QA-----ALRRTMEKETKSTRFCLIC-----NYVSCIIQPLTSRCSKFR--FKPLAENTM 201
                   + R  ++        L+       +V  +   + S   +    F P     +
Sbjct: 147 GGQDLLYRITRINQELGDRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQL 206

Query: 202 LT----RLQYICEQESVMCDFKALETL---VETSGGDMRRAITCLQSCARL---KGGEGI 251
                 R +       +  D   +           GD RRA+  L+    +   +  E +
Sbjct: 207 RDILETRAEEAFNPGVL--DPDVVPLCAALAAREHGDARRALDLLRVAGEIAERRREERV 264

Query: 252 VNEDVLEV 259
             E V   
Sbjct: 265 RREHVYSA 272

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp} Length = 338

 Score = 46.8 bits (112), Expect = 8e-06
 Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 7/53 (13%)

Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKT--STMIA 85
          RP   D  I Q+ +   L   ++ A      L H LF GP G GKT  + +I+
Sbjct: 24 RPSNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIIS 76

>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} Length = 459

 Score = 43.9 bits (103), Expect = 9e-05
 Identities = 21/133 (15%), Positives = 40/133 (30%), Gaps = 20/133 (15%)

Query: 31  KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL 90
             VP         + +   Q+   +++ K +      H    GP GTG T T+     + 
Sbjct: 13  GLVPRGSHMTFDDLTE--GQKNAFNIVMKAIKEKK-HHVTINGPAGTGAT-TLTKFIIEA 68

Query: 91  FGDMYRERILELNASDDRGIQVIRDKVKTFAQ--------------QTASGFNQDGKPCP 136
                   I+ L A      +++       A               +      ++     
Sbjct: 69  LISTGETGII-LAAPTHAAKKILSKLSGKEASTIHSILKINPVTYEENVLFEQKEVPDLA 127

Query: 137 PFKIVILDEADSM 149
             +++I DE  SM
Sbjct: 128 KCRVLICDEV-SM 139

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae} Length = 318

 Score = 41.0 bits (95), Expect = 5e-04
 Identities = 12/143 (8%), Positives = 42/143 (29%), Gaps = 19/143 (13%)

Query: 49  EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL-----FGDMYRERILELN 103
           +   +   +   L  +    F       + K   +     +L       ++     + ++
Sbjct: 28  DFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHID 87

Query: 104 A----SDDRGIQVIRDKV-------KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA 152
           A      D   + I   +           +          K      ++++   +++   
Sbjct: 88  ALELAGMDALYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLS- 146

Query: 153 AQAALRRTMEKET-KSTRFCLIC 174
            +  L+   +  + K+++  +IC
Sbjct: 147 -EKILQYFEKWISSKNSKLSIIC 168

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	456
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	100.0
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	100.0
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	100.0
2chq_A	319	Replication factor C small subunit; DNA-binding pr	100.0
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	100.0
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	100.0
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	100.0
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	100.0
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	100.0
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	99.97
3pvs_A	447	Replication-associated recombination protein A; ma	99.97
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.96
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.96
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.95
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.93
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.91
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.9
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.89
3bos_A	242	Putative DNA replication factor; P-loop containing	99.87
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.87
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.86
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.86
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.85
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.83
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.83
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.81
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.81
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.8
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.8
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.79
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.79
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.79
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.79
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.78
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.78
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.78
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.77
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.77
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.77
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.77
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.75
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.75
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.75
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.75
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.75
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.74
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.73
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.73
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.73
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.72
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.71
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.71
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.69
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.69
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.67
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.66
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.65
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.65
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.65
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.64
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.63
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.62
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.62
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.6
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.6
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.6
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.6
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.6
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.59
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.59
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.58
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.54
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.54
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.49
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.47
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.43
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.41
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.4
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.39
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.38
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.38
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.34
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.34
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.32
3co5_A	143	Putative two-component system transcriptional RES	99.28
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.23
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.14
2fna_A	357	Conserved hypothetical protein; structural genomic	99.12
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.03
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	98.94
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.89
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.8
3f8t_A	506	Predicted ATPase involved in replication control,	98.77
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.73
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.71
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.68
2qgz_A	308	Helicase loader, putative primosome component; str	98.6
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	98.41
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.32
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.29
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	98.17
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	98.16
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.96
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	97.88
1jql_B	140	DNA polymerase III, delta subunit; processivity cl	97.82
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	97.76
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.68
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.65
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.53
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.52
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.41
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.17
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	97.02
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	96.99
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.99
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	96.93
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	96.9
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.88
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.87
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.86
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	96.86
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.82
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	96.78
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.76
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.75
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.74
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	96.74
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	96.72
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.68
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.65
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.6
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.56
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.55
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.53
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.52
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.51
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.47
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	96.46
1nrj_B	218	SR-beta, signal recognition particle receptor beta	96.43
3io5_A	333	Recombination and repair protein; storage dimer, i	96.41
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.29
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.27
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.17
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	96.13
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.1
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.1
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.09
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.07
3b6e_A	216	Interferon-induced helicase C domain-containing P;	96.01
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.99
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.86
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	95.85
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.83
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	95.81
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.81
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.8
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.73
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.72
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.72
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.7
1via_A	175	Shikimate kinase; structural genomics, transferase	95.68
3h1t_A	590	Type I site-specific restriction-modification syst	95.66
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.64
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.63
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.58
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.57
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.56
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.55
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.48
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	95.47
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	95.47
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.47
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.47
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.44
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.43
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.42
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.4
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	95.39
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.38
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.37
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.35
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.35
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.34
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.34
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.33
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.31
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.3
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.26
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.25
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.25
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.25
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.24
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.23
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	95.22
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.2
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.19
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.18
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.17
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	95.17
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.16
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.15
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.13
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.13
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.12
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.1
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.1
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.09
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.09
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	95.09
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.08
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.07
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.07
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.07
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.04
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.04
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.03
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.03
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.02
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.02
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.01
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.0
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	94.99
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	94.94
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	94.91
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	94.89
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	94.89
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	94.87
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.83
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.78
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.78
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.78
2r6a_A	454	DNAB helicase, replicative helicase; replication,	94.74
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.73
2z43_A	324	DNA repair and recombination protein RADA; archaea	94.71
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	94.71
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	94.71
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.69
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	94.66
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	94.65
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	94.64
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.61
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	94.6
1p9r_A	418	General secretion pathway protein E; bacterial typ	94.58
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.55
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	94.54
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	94.53
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	94.52
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	94.52
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	94.52
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.49
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	94.47
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	94.46
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	94.42
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.41
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	94.39
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	94.38
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	94.35
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.34
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	94.32
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	94.29
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	94.28
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.27
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.25
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.22
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.21
3llu_A	196	RAS-related GTP-binding protein C; structural geno	94.2
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	94.2
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	94.14
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	94.13
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	94.12
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	94.11
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	94.11
2xxa_A	433	Signal recognition particle protein; protein trans	94.09
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	94.08
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	94.07
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	94.02
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	93.99
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.98
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	93.95
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	93.94
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	93.94
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	93.91
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	93.89
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	93.88
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.84
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	93.83
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	93.83
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	93.81
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	93.8
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	93.79
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.76
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	93.75
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	93.73
2fh5_B	214	SR-beta, signal recognition particle receptor beta	93.73
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	93.7
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	93.67
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.62
3bor_A	237	Human initiation factor 4A-II; translation initiat	93.59
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	93.59
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	93.58
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	93.58
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	93.58
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	93.56
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	93.55
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	93.53
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	93.52
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	93.5
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.5
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	93.49
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	93.48
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	93.46
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	93.44
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	93.37
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	93.37
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	93.35
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	93.35
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	93.34
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	93.31
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	93.29
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	93.28
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	93.28
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	93.28
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	93.26
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	93.24
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	93.23
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	93.19
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	93.18
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.18
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	93.18
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	93.13
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	93.13
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.1
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	93.1
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	93.1
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	93.09
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	93.09
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	93.07
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	93.05
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	93.05
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	93.03
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	93.02
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	93.02
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	93.01
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	93.0
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	93.0
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	92.9
1taf_B	70	TFIID TBP associated factor 62; transcription init	92.9
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	92.89
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	92.88
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	92.86
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	92.86
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	92.85
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.85
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	92.83
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	92.83
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	92.81
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	92.8
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	92.79
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.73
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	92.71
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	92.69
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	92.65
2ged_A	193	SR-beta, signal recognition particle receptor beta	92.65
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	92.61
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	92.53
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	92.52
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	92.47
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	92.46
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	92.46
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	92.41
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	92.37
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	92.33
2z83_A	459	Helicase/nucleoside triphosphatase; hydrolase, mem	92.3
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	92.25
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	92.19
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	92.17
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	92.15
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	92.13
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	92.1
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	92.07
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	92.07
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	92.06
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	92.02
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	92.02
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	92.0
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.0
4dra_A	113	Centromere protein S; DNA binding complex, DNA dam	91.97
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	91.97
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	91.91
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	91.9
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	91.84
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	91.82
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	91.69
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	91.69
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	91.62
3kta_A	182	Chromosome segregation protein SMC; structural mai	91.58
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	91.57
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	91.54
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	91.54
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	91.54
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	91.5
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	91.47
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	91.45
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	91.44
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	91.39
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	91.38
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	91.36
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	91.36
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	91.36
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	91.34
3v9r_A	90	MHF1, uncharacterized protein YOL086W-A; histone f	91.34
2ewv_A	372	Twitching motility protein PILT; pilus retraction	91.26
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	91.23
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	91.21
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	91.19
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	91.18
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	91.14
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	91.1
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	91.08
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	91.07
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	91.07
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	91.04
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	91.0
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	90.9
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	90.88
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	90.87
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	90.87
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	90.74
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	90.11
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	90.68
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	90.66
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	90.66
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	90.64
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	90.63
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	90.56
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	90.55
2wji_A	165	Ferrous iron transport protein B homolog; membrane	90.54
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	90.53
1sgw_A	214	Putative ABC transporter; structural genomics, P p	90.51
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	90.5
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	90.47
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	90.47
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	90.44
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	90.4
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	90.39
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	90.39
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	90.37
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	90.36
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	90.31
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	90.22
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	90.13
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	90.09
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	90.08
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	90.08
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	89.99
1b0u_A	262	Histidine permease; ABC transporter, transport pro	89.97
1taf_A	68	TFIID TBP associated factor 42; transcription init	89.95
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	89.92
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	89.88
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	89.86
2zpa_A	671	Uncharacterized protein YPFI; RNA modification enz	89.85
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	89.81
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	89.8
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	89.79
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	89.79
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	89.76
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	89.75
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	89.75
1g6h_A	257	High-affinity branched-chain amino acid transport	89.75
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	89.7
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	89.67
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	89.64
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	89.63
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	89.63
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	89.63
1ji0_A	240	ABC transporter; ATP binding protein, structural g	89.62
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	89.62
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	89.53
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	89.52
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	89.49
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	89.48
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	89.44
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	89.43
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	89.43
2og2_A	359	Putative signal recognition particle receptor; nuc	89.42
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	89.41
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	89.37
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	89.35
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	89.28
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	89.27
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	89.24
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	89.22
2ghi_A	260	Transport protein; multidrug resistance protein, M	89.16
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	89.15
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	89.15
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	89.14
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	89.12
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	89.06
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	89.06
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	89.06

>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=100.00  E-value=8.1e-41  Score=329.75  Aligned_cols=316  Identities=36%  Similarity=0.629  Sum_probs=276.1

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChH
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ  111 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~  111 (456)
                      +.||.++|+|.+|++++|++.+++.|..+++.++++|++|+||||+|||++++++++.+.+..+...+.++|+++..+.+
T Consensus        12 ~~~~~~k~rp~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~~   91 (340)
T 1sxj_C           12 NLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGID   91 (340)
T ss_dssp             CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHH
T ss_pred             CCchHHHhCCCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccHH
Confidence            68999999999999999999999999999999999899999999999999999999998876666678899998877888


Q ss_pred             HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEE
Q psy12150        112 VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKF  191 (456)
Q Consensus       112 ~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i  191 (456)
                      .+++.+..+.......       .++++++||||+|.++.+.++.|++++++++..+++|+++|...++.+++.+||..+
T Consensus        92 ~ir~~i~~~~~~~~~~-------~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~  164 (340)
T 1sxj_C           92 VVRNQIKDFASTRQIF-------SKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRF  164 (340)
T ss_dssp             HHHTHHHHHHHBCCSS-------SCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             HHHHHHHHHHhhcccC-------CCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeE
Confidence            8887777666432111       025689999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhC---CCCCCHHHHHHHhCCCCHHHH
Q psy12150        192 RFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKG---GEGIVNEDVLEVTGVIPKPWI  268 (456)
Q Consensus       192 ~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~---~~~It~~~v~~~~~~~~~~~i  268 (456)
                      .|.+++.+++.+++..+++++++.+++++++.+++.++||+|.+++.++.++.+++   ...||.++|.++++...++.+
T Consensus       165 ~~~~l~~~~~~~~l~~~~~~~~~~i~~~~~~~i~~~s~G~~r~~~~~l~~~~~~~~~~~~~~it~~~v~~~~~~~~~~~i  244 (340)
T 1sxj_C          165 RFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRPSDL  244 (340)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTTCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHTTCCCHHHH
T ss_pred             eccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCcccccccHHHHHHHhCCCCHHHH
Confidence            99999999999999999999999999999999999999999999999998876653   137999999999999988888


Q ss_pred             HHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcC
Q psy12150        269 EKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKG  348 (456)
Q Consensus       269 ~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~  348 (456)
                      +++++.                                                                          
T Consensus       245 ~~l~~~--------------------------------------------------------------------------  250 (340)
T 1sxj_C          245 KAVLKS--------------------------------------------------------------------------  250 (340)
T ss_dssp             HHHHHH--------------------------------------------------------------------------
T ss_pred             HHHHHH--------------------------------------------------------------------------
Confidence            888777                                                                          


Q ss_pred             CCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHH
Q psy12150        349 GEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLIL-EAYSATQLFDQFHDIVMSASSLS-DKQKALILEKLAE  426 (456)
Q Consensus       349 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~g~s~~di~~~l~~~~~~~~~~~-~~~~~~~~~~l~~  426 (456)
                                              +..+++.++...+..++. +|++..+|+..|+..+... .++ +..+.+++..+++
T Consensus       251 ------------------------i~~~~~~~al~~l~~l~~~~g~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~~l~~  305 (340)
T 1sxj_C          251 ------------------------ILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDY-ELQNEETRVHLLTKLAD  305 (340)
T ss_dssp             ------------------------HHTSCHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTTS-CCSSHHHHHHHHHHHHH
T ss_pred             ------------------------HHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cCCcHHHHHHHHHHHHH
Confidence                                    001333444445666665 7888888888888888765 688 9999999999999


Q ss_pred             HHhhhhcCCChhHHHHHHHHHHHHHhc
Q psy12150        427 CNARLQDGASEYIQILDLGSIVIKANK  453 (456)
Q Consensus       427 ~~~~l~~g~~~~~ql~~l~~~~~~~~~  453 (456)
                      +|++|+.|+++.+|+..++..++.+++
T Consensus       306 ~~~~l~~g~~~~l~le~l~~~l~~~~~  332 (340)
T 1sxj_C          306 IEYSISKGGNDQIQGSAVIGAIKASFE  332 (340)
T ss_dssp             HHHHHTTCCCHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHhCCChHHHHHHHHHHHHHHhh
Confidence            999999999999999999999998864

>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=100.00  E-value=2e-39  Score=320.99  Aligned_cols=327  Identities=46%  Similarity=0.782  Sum_probs=266.6

Q ss_pred             CCCCCCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCC-ccccceEEeeC
Q psy12150         26 GKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD-MYRERILELNA  104 (456)
Q Consensus        26 ~~~~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~-~~~~~~~e~n~  104 (456)
                      ..++....||.++|+|.+|++++|++++++.+..++..+..++++|+||||+|||++++++++.+... .+...+.++++
T Consensus        18 ~~~~~~~~~~~~k~~p~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~   97 (353)
T 1sxj_D           18 AEQSLAQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNA   97 (353)
T ss_dssp             --------CHHHHTCCSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECS
T ss_pred             hhhcccCccHHHhcCCCCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEcc
Confidence            34456778999999999999999999999999999999988889999999999999999999987532 23456888998


Q ss_pred             CCCcChHHHHHHHHHHHHhhccCCCC---CCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCccccc
Q psy12150        105 SDDRGIQVIRDKVKTFAQQTASGFNQ---DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCII  181 (456)
Q Consensus       105 ~~~~~~~~i~~~l~~~~~~~~~~~~~---~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~  181 (456)
                      ++..+...+.+.+..+..........   ...+.+++++|||||++.+....++.|++++++++..+++|++++.+.++.
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~  177 (353)
T 1sxj_D           98 SDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRII  177 (353)
T ss_dssp             SSCCCHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSC
T ss_pred             ccccchHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCc
Confidence            88777777776666655432110000   011223567999999999999999999999999988889999999999999


Q ss_pred             ccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCC----CCCHHHHH
Q psy12150        182 QPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGE----GIVNEDVL  257 (456)
Q Consensus       182 ~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~----~It~~~v~  257 (456)
                      +++.+||..++|.+++.+++..++..++..+++.+++++++.|++.++||+|.+++.+++++.++++.    .||.++|.
T Consensus       178 ~~l~sR~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~r~~~~~l~~~~~~~~~~~~~~~It~~~v~  257 (353)
T 1sxj_D          178 DPLASQCSKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVE  257 (353)
T ss_dssp             HHHHHHSEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSCHHHHHHHHHHTHHHHHHHCSCCCCCHHHHH
T ss_pred             chhhccCceEEeCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCccCccccHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999988776422    79999999


Q ss_pred             HHhCCCCHHHHHHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHH
Q psy12150        258 EVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAI  337 (456)
Q Consensus       258 ~~~~~~~~~~i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~  337 (456)
                      ++++....+.+++++++                                                               
T Consensus       258 ~~~~~~~~~~~~~l~~~---------------------------------------------------------------  274 (353)
T 1sxj_D          258 ELAGVVPHDILIEIVEK---------------------------------------------------------------  274 (353)
T ss_dssp             HHHTCCCSHHHHHHHHH---------------------------------------------------------------
T ss_pred             HHhCCCCHHHHHHHHHH---------------------------------------------------------------
Confidence            99998888888888776                                                               


Q ss_pred             HHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHH
Q psy12150        338 TCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQK  417 (456)
Q Consensus       338 ~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~  417 (456)
                                                         +..+++..+...+..+...|++..+|+..+.+.+.....+++..+
T Consensus       275 -----------------------------------~~~~~~~~a~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~  319 (353)
T 1sxj_D          275 -----------------------------------VKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFK  319 (353)
T ss_dssp             -----------------------------------HHSCCHHHHHHHHHHHHHTSCCCTTHHHHHHHHHHHCSSSCHHHH
T ss_pred             -----------------------------------HhcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccCCHHHH
Confidence                                               001223333335555666777777777777777776657999999


Q ss_pred             HHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHH
Q psy12150        418 ALILEKLAECNARLQDGASEYIQILDLGSIVIK  450 (456)
Q Consensus       418 ~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~  450 (456)
                      .+++..++++|++|+.|+++.+|+..+++.++.
T Consensus       320 ~~~~~~l~~~~~~l~~g~~~~l~l~~~~~~~~~  352 (353)
T 1sxj_D          320 NQISWLLFTTDSRLNNGTNEHIQLLNLLVKISQ  352 (353)
T ss_dssp             HHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHh
Confidence            999999999999999999999999999999875

>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=100.00  E-value=2.6e-38  Score=309.50  Aligned_cols=317  Identities=40%  Similarity=0.675  Sum_probs=269.2

Q ss_pred             CCCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        29 ~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      ...+.||.++|+|.+|++++|++..++.+..++..++.++++|+||||+|||++++++++.+.+..+...++++++++..
T Consensus         9 ~~~~~~~~~k~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (327)
T 1iqp_A            9 KVLEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDER   88 (327)
T ss_dssp             HHTTSCHHHHTCCCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHH
T ss_pred             cccCCchhhccCCCCHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccC
Confidence            34578999999999999999999999999999999998889999999999999999999998665555568889988765


Q ss_pred             ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCc
Q psy12150        109 GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRC  188 (456)
Q Consensus       109 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~  188 (456)
                      +.+.+++.+..+........       +++++|||||++.++.+.++.|++++++++..+++|++++.+.++.+++.+||
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~-------~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~  161 (327)
T 1iqp_A           89 GINVIREKVKEFARTKPIGG-------ASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRC  161 (327)
T ss_dssp             HHHTTHHHHHHHHHSCCGGG-------CSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTE
T ss_pred             chHHHHHHHHHHHhhCCcCC-------CCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhC
Confidence            55556666655543221110       25679999999999999999999999999889999999999999999999999


Q ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHH
Q psy12150        189 SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWI  268 (456)
Q Consensus       189 ~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i  268 (456)
                      ..+.|.+++.+++..++..++.++++.+++++++.|++.++||+|.+++.+++++.+  .+.||.++|.++++...++.+
T Consensus       162 ~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~--~~~i~~~~v~~~~~~~~~~~i  239 (327)
T 1iqp_A          162 AIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAAL--DKKITDENVFMVASRARPEDI  239 (327)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CSEECHHHHHHHTTCCCHHHH
T ss_pred             cEEEecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHhc--CCCCCHHHHHHHHCCCCHHHH
Confidence            999999999999999999999999999999999999999999999999999988764  347999999999999999888


Q ss_pred             HHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcC
Q psy12150        269 EKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKG  348 (456)
Q Consensus       269 ~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~  348 (456)
                      ++++++                             ++                                           
T Consensus       240 ~~l~~~-----------------------------~~-------------------------------------------  247 (327)
T 1iqp_A          240 REMMLL-----------------------------AL-------------------------------------------  247 (327)
T ss_dssp             HHHHHH-----------------------------HH-------------------------------------------
T ss_pred             HHHHHH-----------------------------HH-------------------------------------------
Confidence            888776                             00                                           


Q ss_pred             CCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHH-HcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy12150        349 GEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLI-LEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAEC  427 (456)
Q Consensus       349 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~  427 (456)
                                                .+++..+...+..++ .+|++..+++..|.+.+.+. .++...+.+++..++++
T Consensus       248 --------------------------~~~~~~~~~~~~~ll~~~g~~~~~i~~~l~~~~~~~-~~~~~~l~~~~~~l~~~  300 (327)
T 1iqp_A          248 --------------------------KGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNL-PIEEPKKVLLADKIGEY  300 (327)
T ss_dssp             --------------------------HTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHGGGS-SSCHHHHHHHHHHHHHH
T ss_pred             --------------------------cCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHH
Confidence                                      112222333444454 67888888888888877765 68999999999999999


Q ss_pred             HhhhhcCCChhHHHHHHHHHHHHHhc
Q psy12150        428 NARLQDGASEYIQILDLGSIVIKANK  453 (456)
Q Consensus       428 ~~~l~~g~~~~~ql~~l~~~~~~~~~  453 (456)
                      |++++.|+++.+++..++..++.+.+
T Consensus       301 ~~~lk~~~~~~~~le~l~~~l~~~~~  326 (327)
T 1iqp_A          301 NFRLVEGANEIIQLEALLAQFTLIGK  326 (327)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHHhhc
Confidence            99999999999999999999998754

>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=100.00  E-value=2.1e-38  Score=308.97  Aligned_cols=313  Identities=42%  Similarity=0.705  Sum_probs=265.8

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~  110 (456)
                      +..||.++|+|.+|++++|++..++.+.+++..++.++++|+||||+|||++++++++.+.+..+...++++|+++..+.
T Consensus         3 ~~~~~~~k~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~   82 (319)
T 2chq_A            3 NFEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGI   82 (319)
T ss_dssp             ---CTTTTTSCSSGGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCT
T ss_pred             ccccHHHhcCCCCHHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccCh
Confidence            45799999999999999999999999999999998888999999999999999999999876655667889999887666


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceE
Q psy12150        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSK  190 (456)
Q Consensus       111 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~  190 (456)
                      +.+++.+..+.......       ..++++|||||+|.++.+.++.|++++++++..+++|++++...++.+++.+||..
T Consensus        83 ~~~~~~~~~~~~~~~~~-------~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~  155 (319)
T 2chq_A           83 DVVRHKIKEFARTAPIG-------GAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAV  155 (319)
T ss_dssp             TTSSHHHHHHHHSCCSS-------SCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEE
T ss_pred             HHHHHHHHHHHhcCCCC-------CCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeE
Confidence            66666665554222111       02567999999999999999999999999988999999999999999999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHH
Q psy12150        191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEK  270 (456)
Q Consensus       191 i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~  270 (456)
                      ++|.+++.+++..++..+++++|+.+++++++.|++.++||+|.+++.+++++.+  ++.|+.++|.++++...+..+++
T Consensus       156 i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~r~~~~~l~~~~~~--~~~i~~~~v~~~~~~~~~~~~~~  233 (319)
T 2chq_A          156 FRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAI--GEVVDADTIYQITATARPEEMTE  233 (319)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTCCCBCHHHHHHHHHTTTTCHHHHHHHHHHHHHS--SSCBCHHHHHHHTTCCCHHHHHH
T ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHHCCCCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999998765  46799999999999998888888


Q ss_pred             HHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCC
Q psy12150        271 LLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGE  350 (456)
Q Consensus       271 l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~  350 (456)
                      ++++                             +.                                             
T Consensus       234 l~~~-----------------------------~~---------------------------------------------  239 (319)
T 2chq_A          234 LIQT-----------------------------AL---------------------------------------------  239 (319)
T ss_dssp             HHHH-----------------------------HH---------------------------------------------
T ss_pred             HHHH-----------------------------HH---------------------------------------------
Confidence            8877                             00                                             


Q ss_pred             CcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy12150        351 GIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLIL-EAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNA  429 (456)
Q Consensus       351 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~  429 (456)
                                              .+++..+...+..++. +|++..+++..+.+.+... .++...+.+++..++++|+
T Consensus       240 ------------------------~~~~~~a~~~l~~l~~~~g~~~~~i~~~l~~~~~~l-~~~~~~l~~~~~~l~~~~~  294 (319)
T 2chq_A          240 ------------------------KGNFMEARELLDRLMVEYGMSGEDIVAQLFREIISM-PIKDSLKVQLIDKLGEVDF  294 (319)
T ss_dssp             ------------------------HTCHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTS-CSCTTHHHHHHHHHHHHHH
T ss_pred             ------------------------hCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHHHH
Confidence                                    1222223334444544 7888888888888777754 5899999999999999999


Q ss_pred             hhhcCCChhHHHHHHHHHHHHH
Q psy12150        430 RLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       430 ~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      +++.|+++.+++..++..++.+
T Consensus       295 ~lk~~~~~~~~le~l~~~l~~~  316 (319)
T 2chq_A          295 RLTEGANERIQLDAYLAYLSTL  316 (319)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHT
T ss_pred             HHHhcCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999875

>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=100.00  E-value=2.7e-38  Score=313.25  Aligned_cols=323  Identities=28%  Similarity=0.416  Sum_probs=247.4

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHH-hcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc----------------
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCL-SGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY----------------   95 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l-~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~----------------   95 (456)
                      +||++||+|++|++++|++.+++.+++++ ..++.++++|+||+|+|||++++++++.+.+...                
T Consensus         2 ~~w~~kyrP~~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~   81 (354)
T 1sxj_E            2 SLWVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNR   81 (354)
T ss_dssp             --CTTTTCCCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC--------------
T ss_pred             CcchhccCCCCHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccc
Confidence            59999999999999999999999999999 8888888999999999999999999997654221                


Q ss_pred             --------ccceEEeeCCCCcChH--HHHHHHHHHHHhhccCCCC-CCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc
Q psy12150         96 --------RERILELNASDDRGIQ--VIRDKVKTFAQQTASGFNQ-DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE  164 (456)
Q Consensus        96 --------~~~~~e~n~~~~~~~~--~i~~~l~~~~~~~~~~~~~-~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~  164 (456)
                              ...+++++.++.....  .+++.+..+.......... ......+++++|+||++.|....++.|+++++++
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~  161 (354)
T 1sxj_E           82 KLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKY  161 (354)
T ss_dssp             ----CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHS
T ss_pred             cceeeeecccceEEecHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHHHHHHHHHHHHhh
Confidence                    0124555554422111  3444444443221110000 0000136679999999999999999999999999


Q ss_pred             cCcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy12150        165 TKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCD-FKALETLVETSGGDMRRAITCLQSCA  243 (456)
Q Consensus       165 ~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~-~~~l~~L~~~s~gdlr~~~~~L~~~~  243 (456)
                      +..+.+|++++...++.+++++||..++|++++.+++..++..+++++|+.++ +++++.|++.++||+|.+++.+++++
T Consensus       162 ~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~i~~~~~G~~r~a~~~l~~~~  241 (354)
T 1sxj_E          162 SKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMA  241 (354)
T ss_dssp             TTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHHHHHHHTHHH
T ss_pred             cCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            88899999999999999999999999999999999999999999999999999 99999999999999999999999998


Q ss_pred             HhhCCCCCCHHHHHHHhCCCCHHHHHHHHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q psy12150        244 RLKGGEGIVNEDVLEVTGVIPKPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALE  323 (456)
Q Consensus       244 ~~~~~~~It~~~v~~~~~~~~~~~i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~  323 (456)
                      .+.+ +.||.+++  +.....++.+++++++            ++.. ..                              
T Consensus       242 ~~~~-~~i~~~~~--~~~~~~~~~~~~l~~~------------i~~~-~~------------------------------  275 (354)
T 1sxj_E          242 LNNE-LALKSSSP--IIKPDWIIVIHKLTRK------------IVKE-RS------------------------------  275 (354)
T ss_dssp             HTTT-TEECSSCC--CCCCHHHHHHHHHHHH------------HHHC-CS------------------------------
T ss_pred             HhCC-CCcCcCcC--CCCccHHHHHHHHHHH------------HHHh-cc------------------------------
Confidence            7642 35765543  1112223556666665            0000 00                              


Q ss_pred             HHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        324 TLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFH  403 (456)
Q Consensus       324 ~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~  403 (456)
                                                                         ...+..+...+..++.+|++..+|+.+++
T Consensus       276 ---------------------------------------------------~~~~~~~~~~l~~l~~~g~~~~~i~~~l~  304 (354)
T 1sxj_E          276 ---------------------------------------------------VNSLIECRAVLYDLLAHCIPANIILKELT  304 (354)
T ss_dssp             ---------------------------------------------------HHHHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             ---------------------------------------------------hhHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence                                                               01122223345567779999999999999


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHHh
Q psy12150        404 DIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKAN  452 (456)
Q Consensus       404 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~~  452 (456)
                      .++.+...+++..+.++++.++++|++|+.|+++.+||..+++.++.++
T Consensus       305 ~~~~~~~~~~~~~l~~~~~~l~~~d~~l~~g~~~~~~le~~~~~~~~~~  353 (354)
T 1sxj_E          305 FSLLDVETLNTTNKSSIIEYSSVFDERLSLGNKAIFHLEGFIAKVMCCL  353 (354)
T ss_dssp             HTTTTCTTSCHHHHHHHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccCCCHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHh
Confidence            9888765699999999999999999999999999999999999998875

>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=100.00  E-value=6.9e-37  Score=298.79  Aligned_cols=317  Identities=34%  Similarity=0.569  Sum_probs=269.1

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~  110 (456)
                      ...||.++|+|.+|++++|++..++.+.+++..++.++++|+||+|+|||++++.+++.+.+..+...++++++++..+.
T Consensus         7 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~   86 (323)
T 1sxj_B            7 LQLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGI   86 (323)
T ss_dssp             CCCCHHHHTCCSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSH
T ss_pred             ccCcHHHhcCCCCHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccCh
Confidence            35799999999999999999999999999999998888999999999999999999999866555557889999887777


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceE
Q psy12150        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSK  190 (456)
Q Consensus       111 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~  190 (456)
                      +.+++.+..+.......      ..+++++|||||+|.++.+.++.|++++++++..+++|++++...++.+++.+||..
T Consensus        87 ~~i~~~~~~~~~~~~~~------~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~  160 (323)
T 1sxj_B           87 DVVRNQIKHFAQKKLHL------PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAI  160 (323)
T ss_dssp             HHHHTHHHHHHHBCCCC------CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HHHHHHHHHHHhccccC------CCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceE
Confidence            77777766655321110      012467999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHH
Q psy12150        191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEK  270 (456)
Q Consensus       191 i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~  270 (456)
                      ++|.+++.+++..++..+++++|..+++++++.+++.++||+|.+++.+++++...  +.|+.++|.++++......+++
T Consensus       161 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~a~~~l~~~~~~~--~~i~~~~v~~~~~~~~~~~i~~  238 (323)
T 1sxj_B          161 LRYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAGH--GLVNADNVFKIVDSPHPLIVKK  238 (323)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--SSBCHHHHHHHHTSCCHHHHHH
T ss_pred             EeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcC--CCcCHHHHHHHHCCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999987543  5799999999999988888888


Q ss_pred             HHcccchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCC
Q psy12150        271 LLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGE  350 (456)
Q Consensus       271 l~~~~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~  350 (456)
                      +++.++..+++.++..                                                                
T Consensus       239 ~~~~~~~~~~l~~l~~----------------------------------------------------------------  254 (323)
T 1sxj_B          239 MLLASNLEDSIQILRT----------------------------------------------------------------  254 (323)
T ss_dssp             HHSCSSHHHHHHHHHH----------------------------------------------------------------
T ss_pred             HHhcCCHHHHHHHHHH----------------------------------------------------------------
Confidence            8776433333322221                                                                


Q ss_pred             CcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhh
Q psy12150        351 GIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNAR  430 (456)
Q Consensus       351 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~  430 (456)
                                                          .+..+|++..+++..+..++.+...++...+.+++..++++|++
T Consensus       255 ------------------------------------dl~~~g~~~~~i~~~l~~~~~~l~~~~~~~l~~~l~~l~~~~~~  298 (323)
T 1sxj_B          255 ------------------------------------DLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMR  298 (323)
T ss_dssp             ------------------------------------TTTTTTCCHHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHHHH
T ss_pred             ------------------------------------HHHHcCCCHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHH
Confidence                                                03336778888888888777765348999999999999999999


Q ss_pred             hhcCCChhHHHHHHHHHHHHHhccc
Q psy12150        431 LQDGASEYIQILDLGSIVIKANKTA  455 (456)
Q Consensus       431 l~~g~~~~~ql~~l~~~~~~~~~~~  455 (456)
                      ++.|+++.+++..++..++++.++|
T Consensus       299 l~~~~~~~l~le~l~~~~~~~~~~~  323 (323)
T 1sxj_B          299 ILEGVGTYLQLASMLAKIHKLNNKA  323 (323)
T ss_dssp             HHTTCCCHHHHHHHHHHHHHHTTC-
T ss_pred             HHhccChHHHHHHHHHHHHhhccCC
Confidence            9999999999999999999887654

>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=100.00  E-value=2.9e-37  Score=302.31  Aligned_cols=299  Identities=24%  Similarity=0.326  Sum_probs=238.4

Q ss_pred             CCCCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         28 TRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        28 ~~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      .+....||.++|+|++|++++|++..++.+.+++..+..++ ++++||||+|||++++++++.+.     ..++++|+++
T Consensus         9 ~~~~~~~~~~k~rP~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~-----~~~~~i~~~~   83 (324)
T 3u61_B            9 VNEKEHILEQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVN-----ADMMFVNGSD   83 (324)
T ss_dssp             CCTTCSSHHHHSCCCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTT-----EEEEEEETTT
T ss_pred             cCcccchHHHhhCCCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhC-----CCEEEEcccc
Confidence            44667899999999999999999999999999999998887 88889999999999999999873     3788999887


Q ss_pred             CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCcc-HHHHHHHHHHHHhccCcceEEEEecCccccccccc
Q psy12150        107 DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT-HAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLT  185 (456)
Q Consensus       107 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~-~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~  185 (456)
                      .. .+.+++.+..+.......        +++++|||||+|.++ .+.++.|++++++++..+++|+++|...++.+++.
T Consensus        84 ~~-~~~i~~~~~~~~~~~~~~--------~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~  154 (324)
T 3u61_B           84 CK-IDFVRGPLTNFASAASFD--------GRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQ  154 (324)
T ss_dssp             CC-HHHHHTHHHHHHHBCCCS--------SCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHH
T ss_pred             cC-HHHHHHHHHHHHhhcccC--------CCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHH
Confidence            44 667777676665442221        256799999999999 99999999999999889999999999999999999


Q ss_pred             CCceEEEecCCCHHH-------HHHHHHHHHHHcCCCCCH-HHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHH
Q psy12150        186 SRCSKFRFKPLAENT-------MLTRLQYICEQESVMCDF-KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVL  257 (456)
Q Consensus       186 ~r~~~i~f~~~~~~e-------l~~~l~~~~~~~~~~i~~-~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~  257 (456)
                      +||..++|++|+.++       +..++...+..+++.+++ ++++.+++.++||+|.+++.|++++   .++.||.+++.
T Consensus       155 sR~~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R~a~~~L~~~~---~~~~i~~~~v~  231 (324)
T 3u61_B          155 SRCRVITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDSYS---SKGVLDAGILS  231 (324)
T ss_dssp             HHSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTTHHHHHHHHHG---GGTCBCC----
T ss_pred             hhCcEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHHHHHHHHHHHh---ccCCCCHHHHH
Confidence            999999999999887       456677778889999998 9999999999999999999999987   34579999998


Q ss_pred             HHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHH
Q psy12150        258 EVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMR  334 (456)
Q Consensus       258 ~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r  334 (456)
                      +++..  ++.++.+++.   ++.+++..++.+++.                                             
T Consensus       232 ~~~~~--~~~i~~~~~~~~~~~~~~a~~~~~~l~~---------------------------------------------  264 (324)
T 3u61_B          232 LVTND--RGAIDDVLESLKNKDVKQLRALAPKYAA---------------------------------------------  264 (324)
T ss_dssp             ----------CHHHHHHHHTTCHHHHHHHHHHHSS---------------------------------------------
T ss_pred             HHhCC--HHHHHHHHHHHHcCCHHHHHHHHHHhcc---------------------------------------------
Confidence            88765  3455555554   344444443333322                                             


Q ss_pred             HHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCH
Q psy12150        335 RAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSD  414 (456)
Q Consensus       335 ~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~  414 (456)
                                                                                 +..+|+..|+..+.+  .++.
T Consensus       265 -----------------------------------------------------------~~~~i~~~l~~~~~~--~~~~  283 (324)
T 3u61_B          265 -----------------------------------------------------------DYSWFVGKLAEEIYS--RVTP  283 (324)
T ss_dssp             -----------------------------------------------------------CHHHHHHHHHHHHHH--HSCH
T ss_pred             -----------------------------------------------------------CHHHHHHHHHHHHHH--hCCH
Confidence                                                                       455555556655554  5788


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        415 KQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       415 ~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      ..+.+++..++++|++|+.|+++.+||..+++.++..
T Consensus       284 ~~l~~i~~~l~~~d~~l~~g~~~~~~le~~~~~~~~~  320 (324)
T 3u61_B          284 QSIIRMYEIVGENNQYHGIAANTELHLAYLFIQLACE  320 (324)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999865

>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=100.00  E-value=1.5e-34  Score=288.18  Aligned_cols=330  Identities=19%  Similarity=0.256  Sum_probs=269.0

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccc--------------
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR--------------   96 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~--------------   96 (456)
                      ..||.++|+|.+|++++|++..++.+..++..++.++ ++|+||+|+|||++++++++.+.+....              
T Consensus         3 ~~~l~~k~rp~~~~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~   82 (373)
T 1jr3_A            3 YQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREI   82 (373)
T ss_dssp             CCCHHHHTCCCSTTTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHH
T ss_pred             cHHHHHhhCCCchhhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHH
Confidence            4689999999999999999999999999999988877 8999999999999999999988653210              


Q ss_pred             -----cceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEE
Q psy12150         97 -----ERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus        97 -----~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lI  171 (456)
                           ..+++++.....+.+.+++.+..+...+..         +++++|||||+|.++.+.++.|++++++++..+++|
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---------~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~I  153 (373)
T 1jr3_A           83 EQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPAR---------GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFL  153 (373)
T ss_dssp             HTSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSS---------SSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEE
T ss_pred             hccCCCceEEecccccCCHHHHHHHHHHHhhcccc---------CCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEE
Confidence                 135666665544444555544443221111         256799999999999999999999999999999999


Q ss_pred             EEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCC
Q psy12150        172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGI  251 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~I  251 (456)
                      ++++...++.+++.+||..++|.+++.+++..|+..+++++|+.+++++++.+++.++||+|.+.+.++++..+. ++.|
T Consensus       154 l~~~~~~~l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~~~~~a~~~l~~~~~G~~r~~~~~l~~~~~~~-~~~i  232 (373)
T 1jr3_A          154 LATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASG-DGQV  232 (373)
T ss_dssp             EEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHSSSCHHHHHHHHHHHHHHT-TTCB
T ss_pred             EEeCChHhCcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHhc-CCcc
Confidence            999988899999999999999999999999999999999999999999999999999999999999999998765 4689


Q ss_pred             CHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy12150        252 VNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALET  324 (456)
Q Consensus       252 t~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~  324 (456)
                      |.++|.++++......+++++++   ++..++..+++++...|++|..++    ++||+++.....              
T Consensus       233 ~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~g~~~~~~l~~l~~~~r~l~~~~~~--------------  298 (373)
T 1jr3_A          233 STQAVSAMLGTLDDDQALSLVEAMVEANGERVMALINEAAARGIEWEALLVEMLGLLHRIAMVQLS--------------  298 (373)
T ss_dssp             CHHHHHHHTTCCCHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHTTC--------------
T ss_pred             cHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHhhc--------------
Confidence            99999999999999999999998   889999999999999999998755    666666611100              


Q ss_pred             HHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHH
Q psy12150        325 LVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHD  404 (456)
Q Consensus       325 ~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~  404 (456)
                                             +..                         .              .++ -.+....+.+
T Consensus       299 -----------------------~~~-------------------------~--------------~~~-~~~~~~~~~~  315 (373)
T 1jr3_A          299 -----------------------PAA-------------------------L--------------GND-MAAIELRMRE  315 (373)
T ss_dssp             -----------------------TTC-------------------------C--------------CSG-GGGTHHHHHH
T ss_pred             -----------------------Ccc-------------------------c--------------ccc-chhHHHHHHH
Confidence                                   000                         0              000 0112233333


Q ss_pred             HHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHH
Q psy12150        405 IVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       405 ~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~  451 (456)
                      ...   .++.....+++..+.++|.+++.+.+..+.+..++..++..
T Consensus       316 ~a~---~~~~~~l~~~~~~l~~~~~~lk~~~~~~l~le~~ll~~~~~  359 (373)
T 1jr3_A          316 LAR---TIPPTDIQLYYQTLLIGRKELPYAPDRRMGVEMTLLRALAF  359 (373)
T ss_dssp             HHH---HSCHHHHHHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHHT
T ss_pred             HHH---hCCHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhc
Confidence            333   47888899999999999999999999999999999888765

>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=100.00  E-value=4.9e-33  Score=268.51  Aligned_cols=281  Identities=12%  Similarity=0.085  Sum_probs=213.9

Q ss_pred             ccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc-CCccccceEEeeCCC-CcChHHHHHHHHHHHHhhcc
Q psy12150         49 EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF-GDMYRERILELNASD-DRGIQVIRDKVKTFAQQTAS  126 (456)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~-~~~~~~~~~e~n~~~-~~~~~~i~~~l~~~~~~~~~  126 (456)
                      ||+++++.|++.++.++.++|+||||||+|||++++++++.+. ......++.++++++ ..+.+.+++.+..+...+..
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~~p~~   80 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPEL   80 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSS
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhhcccc
Confidence            7889999999999999855699999999999999999998642 111133788888875 57888888877666544332


Q ss_pred             CCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHH
Q psy12150        127 GFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQ  206 (456)
Q Consensus       127 ~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~  206 (456)
                               ++++|+||||+|.|+.+++++|+++||+|+++++||++|+++.++.++++||  .++|.+++.+++.+|+.
T Consensus        81 ---------~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR--~~~f~~l~~~~i~~~L~  149 (305)
T 2gno_A           81 ---------YTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR--VFRVVVNVPKEFRDLVK  149 (305)
T ss_dssp             ---------SSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT--SEEEECCCCHHHHHHHH
T ss_pred             ---------CCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce--eEeCCCCCHHHHHHHHH
Confidence                     2688999999999999999999999999999999999999999999999999  99999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH-------hhCCCCCCHHHHHHHhCCCCHH--HHHHHHcc---
Q psy12150        207 YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR-------LKGGEGIVNEDVLEVTGVIPKP--WIEKLLKV---  274 (456)
Q Consensus       207 ~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~-------~~~~~~It~~~v~~~~~~~~~~--~i~~l~~~---  274 (456)
                      .++     .++++++    ..+.||+|.+++.++....       +... .-+.++|..+++...++  ++|+++++   
T Consensus       150 ~~~-----~i~~~~~----~~~~g~~~~al~~l~~~~~~~~~l~~~~~~-~~~~~~v~~~~~~~~~~~~~v~~l~~ai~~  219 (305)
T 2gno_A          150 EKI-----GDLWEEL----PLLERDFKTALEAYKLGAEKLSGLMESLKV-LETEKLLKKVLSKGLEGYLACRELLERFSK  219 (305)
T ss_dssp             HHH-----TTHHHHC----GGGGTCHHHHHHHHHHHHHHHHHHHHHHHH-SCHHHHTTTTTCSHHHHHHHHHHHHHHHHH
T ss_pred             HHh-----CCCHHHH----HHHCCCHHHHHHHHHHHHHHHHHHHHHHHh-cccHHHHHHHHccCCcchHHHHHHHHHHHC
Confidence            988     3667665    4568999999888853221       1110 11467777777776654  78888777   


Q ss_pred             cchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCccc
Q psy12150        275 DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN  354 (456)
Q Consensus       275 ~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~  354 (456)
                      ++..+|++.+++|+..                                                                
T Consensus       220 ~~~~~a~~~~~~l~~~----------------------------------------------------------------  235 (305)
T 2gno_A          220 VESKEFFALFDQVTNT----------------------------------------------------------------  235 (305)
T ss_dssp             SCGGGHHHHHHHHHHH----------------------------------------------------------------
T ss_pred             CCHHHHHHHHHHHHHh----------------------------------------------------------------
Confidence            5555555555554440                                                                


Q ss_pred             ccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhc-
Q psy12150        355 EDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQD-  433 (456)
Q Consensus       355 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~-  433 (456)
                                                         ..|++..+++..+++.+....   +..+.++++.++++|++++. 
T Consensus       236 -----------------------------------~~g~~~~~~i~~~~r~l~~~~---~~~~~~~l~~~~~~~~~~~~k  277 (305)
T 2gno_A          236 -----------------------------------ITGKDAFLLIQRLTRIILHEN---TWESVEDQKSVSFLDSILRVK  277 (305)
T ss_dssp             -----------------------------------SCTHHHHHHHHHHHHHHHHTS---CCCSHHHHHHHHHHHHHHTCC
T ss_pred             -----------------------------------hcCCCHHHHHHHHHHHHHhhc---hhhhHHHHHHHHHHHHHHHHh
Confidence                                               045555555555555555332   33457788899999999999 


Q ss_pred             --CCChhHHHHHHHHHHHHHh
Q psy12150        434 --GASEYIQILDLGSIVIKAN  452 (456)
Q Consensus       434 --g~~~~~ql~~l~~~~~~~~  452 (456)
                        |+++.+||.+++++|+...
T Consensus       278 ~~g~~~~lql~~l~~~~~~~~  298 (305)
T 2gno_A          278 IANLNNKLTLMNILAIHRERK  298 (305)
T ss_dssp             GGGCCHHHHHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHHhc
Confidence              9999999999999999764

>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=99.97  E-value=6.7e-32  Score=266.29  Aligned_cols=308  Identities=11%  Similarity=0.046  Sum_probs=237.9

Q ss_pred             HHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc-ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCC
Q psy12150         56 VLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK  133 (456)
Q Consensus        56 ~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~-~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  133 (456)
                      ++.+.++ ++.++ |+||||+|+||+++++.+++.+.+..+ ...+++++..     .++++.+..+...+.++      
T Consensus         8 ~l~~~l~-~~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~plf~------   75 (343)
T 1jr3_D            8 QLRAQLN-EGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDPN-----TDWNAIFSLCQAMSLFA------   75 (343)
T ss_dssp             THHHHHH-HCCCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCTT-----CCHHHHHHHHHHHHHCC------
T ss_pred             HHHHHHh-cCCCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecCC-----CCHHHHHHHhcCcCCcc------
Confidence            3555666 45555 999999999999999999998754322 2234455431     23444444544444443      


Q ss_pred             CCCCcEEEEEcCCCC-ccHHHHHHHHHHHHhccCcceEEEEecC------cccccccccCCceEEEecCCCHHHHHHHHH
Q psy12150        134 PCPPFKIVILDEADS-MTHAAQAALRRTMEKETKSTRFCLICNY------VSCIIQPLTSRCSKFRFKPLAENTMLTRLQ  206 (456)
Q Consensus       134 ~~~~~~iviIDE~d~-l~~~~~~~Ll~~le~~~~~~~lIl~~~~------~~kl~~~l~~r~~~i~f~~~~~~el~~~l~  206 (456)
                         ++++|+|||++. ++.+.++.|++++++|++++++|++++.      ..++.+++.+||..++|.+++.+++..|++
T Consensus        76 ---~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~  152 (343)
T 1jr3_D           76 ---SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVA  152 (343)
T ss_dssp             ---SCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHH
T ss_pred             ---CCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHH
Confidence               788999999999 9999999999999999999999999875      356889999999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCCHHHHHHHHcc---cchHHHHHH
Q psy12150        207 YICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPKPWIEKLLKV---DSFQVLEKY  283 (456)
Q Consensus       207 ~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~~~~i~~l~~~---~~~~~a~~~  283 (456)
                      .+++++|+.+++++++.|++.++||+|.+.++|++++.|.+++.||.++|.++++...+.++|+++++   ++..+++.+
T Consensus       153 ~~~~~~g~~i~~~a~~~l~~~~~gdl~~~~~elekl~l~~~~~~It~e~V~~~~~~~~~~~if~l~~ai~~~d~~~al~~  232 (343)
T 1jr3_D          153 ARAKQLNLELDDAANQVLCYCYEGNLLALAQALERLSLLWPDGKLTLPRVEQAVNDAAHFTPFHWVDALLMGKSKRALHI  232 (343)
T ss_dssp             HHHHHTTCEECHHHHHHHHHSSTTCHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHCCCCHHHHHHHHTTSCHHHHHHH
T ss_pred             HHHHHcCCCCCHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHH
Confidence            99999999999999999999999999999999999999876678999999999998888899999999   999999999


Q ss_pred             HHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchh
Q psy12150        284 IEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLE  359 (456)
Q Consensus       284 ~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~  359 (456)
                      +++++..|++|..++    ++||+++.......                                               
T Consensus       233 l~~l~~~g~~~~~il~~l~~~~r~l~~~~~~~~-----------------------------------------------  265 (343)
T 1jr3_D          233 LQQLRLEGSEPVILLRTLQRELLLLVNLKRQSA-----------------------------------------------  265 (343)
T ss_dssp             HTSSTTTTCCHHHHHHHHHHHHHHHHHHHTCSS-----------------------------------------------
T ss_pred             HHHHHHCCCcHHHHHHHHHHHHHHHHHHHHHHh-----------------------------------------------
Confidence            999999999999876    66777762111000                                               


Q ss_pred             cccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCC--Ch
Q psy12150        360 VTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGA--SE  437 (456)
Q Consensus       360 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~--~~  437 (456)
                                     .++...   ..+.+   |... +.+..+.+...   .++.....+++..++++|.+++.|.  +.
T Consensus       266 ---------------~g~~~~---i~~~l---~i~~-~~~~~~~~~~~---~~s~~~L~~~l~~l~~~d~~lK~~~~~~~  320 (343)
T 1jr3_D          266 ---------------HTPLRA---LFDKH---RVWQ-NRRGMMGEALN---RLSQTQLRQAVQLLTRTELTLKQDYGQSV  320 (343)
T ss_dssp             ---------------SSCHHH---HHHHH---TCCS-SHHHHHHHHHH---HSCHHHHHHHHHHHHHHHHHHHHSSCSCH
T ss_pred             ---------------CCCHHH---HHHHc---CCCH-HHHHHHHHHHH---cCCHHHHHHHHHHHHHHHHHHhCCCCCCH
Confidence                           000000   01111   2111 11222233333   5789999999999999999999985  45


Q ss_pred             hHHHHHHHHHHHH
Q psy12150        438 YIQILDLGSIVIK  450 (456)
Q Consensus       438 ~~ql~~l~~~~~~  450 (456)
                      .+.+..++..++.
T Consensus       321 ~~~le~l~l~l~~  333 (343)
T 1jr3_D          321 WAELEGLSLLLCH  333 (343)
T ss_dssp             HHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHcC
Confidence            6888888877653

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.97  E-value=1.1e-29  Score=257.51  Aligned_cols=256  Identities=20%  Similarity=0.293  Sum_probs=210.1

Q ss_pred             CcchhccCCCCcccccccHHHH---HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVV---SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~---~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~  109 (456)
                      .||.++|||.+|++++|+++++   ..+...++.+..++++|+||||||||++++++++.+..     .++.+++.. .+
T Consensus        14 ~pla~r~rP~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~~-----~f~~l~a~~-~~   87 (447)
T 3pvs_A           14 QPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANA-----DVERISAVT-SG   87 (447)
T ss_dssp             CCHHHHTCCCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTTC-----EEEEEETTT-CC
T ss_pred             CChHHHhCCCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhCC-----CeEEEEecc-CC
Confidence            6999999999999999999999   88999999999888999999999999999999998743     577777765 55


Q ss_pred             hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEec--CcccccccccCC
Q psy12150        110 IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN--YVSCIIQPLTSR  187 (456)
Q Consensus       110 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~--~~~kl~~~l~~r  187 (456)
                      ...+++.+..........         .+.+|||||+|.++...++.|++++++.  .+++|++++  ....+.++|.+|
T Consensus        88 ~~~ir~~~~~a~~~~~~~---------~~~iLfIDEI~~l~~~~q~~LL~~le~~--~v~lI~att~n~~~~l~~aL~sR  156 (447)
T 3pvs_A           88 VKEIREAIERARQNRNAG---------RRTILFVDEVHRFNKSQQDAFLPHIEDG--TITFIGATTENPSFELNSALLSR  156 (447)
T ss_dssp             HHHHHHHHHHHHHHHHTT---------CCEEEEEETTTCC------CCHHHHHTT--SCEEEEEESSCGGGSSCHHHHTT
T ss_pred             HHHHHHHHHHHHHhhhcC---------CCcEEEEeChhhhCHHHHHHHHHHHhcC--ceEEEecCCCCcccccCHHHhCc
Confidence            666776666554443322         4569999999999999999999999974  456666663  446788999999


Q ss_pred             ceEEEecCCCHHHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhC-C----CCCCHHH
Q psy12150        188 CSKFRFKPLAENTMLTRLQYICEQ-------ESVMCDFKALETLVETSGGDMRRAITCLQSCARLKG-G----EGIVNED  255 (456)
Q Consensus       188 ~~~i~f~~~~~~el~~~l~~~~~~-------~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~-~----~~It~~~  255 (456)
                      |.++.|.+++.+++..++...+.+       .++.+++++++.|++.++||+|.+++.|+.++.++. .    ..||.++
T Consensus       157 ~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le~a~~~a~~~~~~~~~It~e~  236 (447)
T 3pvs_A          157 ARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEMMADMAEVDDSGKRVLKPEL  236 (447)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHHHHHHHSCBCTTSCEECCHHH
T ss_pred             eeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccccCCCCccCHHH
Confidence            999999999999999999999987       567799999999999999999999999999998874 1    4799999


Q ss_pred             HHHHhCCCCH----------HHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHHHHHH
Q psy12150        256 VLEVTGVIPK----------PWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIV  305 (456)
Q Consensus       256 v~~~~~~~~~----------~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~  305 (456)
                      |.+++.....          +.+..+.+.   ++.+.|+.++..|+..|++|..|.|++-.+.
T Consensus       237 v~~~l~~~~~~~dk~gd~~yd~isal~ksirgsd~daAl~~la~ml~~Gedp~~i~rrl~~~a  299 (447)
T 3pvs_A          237 LTEIAGERSARFDNKGDRFYDLISALHKSVRGSAPDAALYWYARIITAGGDPLYVARRCLAIA  299 (447)
T ss_dssp             HHHHHTCCCCC---CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhccCCccchHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            9999987641          344444444   7889999999999999999999998775544

>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=99.96  E-value=2.7e-28  Score=224.13  Aligned_cols=223  Identities=51%  Similarity=0.849  Sum_probs=194.4

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~  110 (456)
                      ...||.++|+|.+|++++|++..++.+..++..+..++++|+||+|+|||++++.+++.+....+...++.+++....+.
T Consensus         3 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   82 (226)
T 2chg_A            3 NFEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGI   82 (226)
T ss_dssp             -CCCHHHHTSCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCH
T ss_pred             chhhHHHhcCCCCHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccCh
Confidence            45799999999999999999999999999999888778999999999999999999998866555667889998887777


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceE
Q psy12150        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSK  190 (456)
Q Consensus       111 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~  190 (456)
                      ..+...+..+.......       .....+|||||++.+....++.|+++++++...+++|++++....+.+++.+|+..
T Consensus        83 ~~~~~~~~~~~~~~~~~-------~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~  155 (226)
T 2chg_A           83 DVVRHKIKEFARTAPIG-------GAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAV  155 (226)
T ss_dssp             HHHHHHHHHHHTSCCST-------TCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HHHHHHHHHHhcccCCC-------ccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCce
Confidence            66666665554321110       12456999999999999999999999999888889999999888899999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCC
Q psy12150        191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGV  262 (456)
Q Consensus       191 i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~  262 (456)
                      ++|.+++.+++..++...+...+..+++++++.+++.++||+|.+++.+++++.++  +.|+.++|+++++.
T Consensus       156 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~l~~~l~~~~~~~--~~I~~~~v~~~~~~  225 (226)
T 2chg_A          156 FRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIG--EVVDADTIYQITAT  225 (226)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHTC--SCBCHHHHHHHHHT
T ss_pred             eecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcC--ceecHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999998765  68999999988753

>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=99.96  E-value=2.1e-28  Score=240.13  Aligned_cols=289  Identities=18%  Similarity=0.182  Sum_probs=211.3

Q ss_pred             cccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccc-------------------cceEEeeCC--
Q psy12150         48 IEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR-------------------ERILELNAS--  105 (456)
Q Consensus        48 vg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~-------------------~~~~e~n~~--  105 (456)
                      ..+++..+.+.+.+++++.+| |||+||||+|||++++++++.+.+....                   .++.+++..  
T Consensus         5 pw~~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~   84 (334)
T 1a5t_A            5 PWLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKG   84 (334)
T ss_dssp             GGGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTT
T ss_pred             CchHHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEecccc
Confidence            356777889999999999988 9999999999999999999998764311                   356677764  


Q ss_pred             -CCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccc
Q psy12150        106 -DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPL  184 (456)
Q Consensus       106 -~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l  184 (456)
                       ...+.+.+++.+..+...+..         ++++|+||||+|.|+.+.++.|++++|+|+.+++||++++++.++.+++
T Consensus        85 ~~~~~i~~ir~l~~~~~~~~~~---------~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti  155 (334)
T 1a5t_A           85 KNTLGVDAVREVTEKLNEHARL---------GGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATL  155 (334)
T ss_dssp             CSSBCHHHHHHHHHHTTSCCTT---------SSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHH
T ss_pred             CCCCCHHHHHHHHHHHhhcccc---------CCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHH
Confidence             446677777665554332221         2678999999999999999999999999999999999999999999999


Q ss_pred             cCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCC
Q psy12150        185 TSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIP  264 (456)
Q Consensus       185 ~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~  264 (456)
                      ++||..++|.+++.+++.+||..++     .+++++++.+++.++||+|.+++.+++....  ...++.+.+..+..   
T Consensus       156 ~SRc~~~~~~~~~~~~~~~~L~~~~-----~~~~~~~~~l~~~s~G~~r~a~~~l~~~~~~--~~~~~~~~~~~~~~---  225 (334)
T 1a5t_A          156 RSRCRLHYLAPPPEQYAVTWLSREV-----TMSQDALLAALRLSAGSPGAALALFQGDNWQ--ARETLCQALAYSVP---  225 (334)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHC-----CCCHHHHHHHHHHTTTCHHHHHHTTSSHHHH--HHHHHHHHHHHHHH---
T ss_pred             hhcceeeeCCCCCHHHHHHHHHHhc-----CCCHHHHHHHHHHcCCCHHHHHHHhccchHH--HHHHHHHHHHHHHh---
Confidence            9999999999999999999998775     6899999999999999999999999875421  11223333333222   


Q ss_pred             HHHHHHHHcccchHHHHHHHHHHHHhccCHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHHhcchHHHHHHHHHH
Q psy12150        265 KPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLF----DQFHDIVMLASSLSDKQKALFKALETLVETSGGDMRRAITCL  340 (456)
Q Consensus       265 ~~~i~~l~~~~~~~~a~~~~~~l~~~~~~~~~i~----~q~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~gd~r~~~~~l  340 (456)
                               ..+..   .++..+  .++++..++    ++||+++                                   
T Consensus       226 ---------~~~~~---~~~~~l--~~~~~~~~l~~l~~~~rdll-----------------------------------  256 (334)
T 1a5t_A          226 ---------SGDWY---SLLAAL--NHEQAPARLHWLATLLMDAL-----------------------------------  256 (334)
T ss_dssp             ---------HCCCG---GGHHHH--CSTTHHHHHHHHHHHHHHHT-----------------------------------
T ss_pred             ---------ChHHH---HHHHHH--hcccHHHHHHHHHHHHHHHH-----------------------------------
Confidence                     11100   111111  123333322    3334433                                   


Q ss_pred             hhhhhhcCCCCcccccchhcccCCCchHHHHHhhhCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHH
Q psy12150        341 QSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALI  420 (456)
Q Consensus       341 q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~  420 (456)
                                                       .          ++. ..+|+...|.+..+.....   .++...+.++
T Consensus       257 ---------------------------------~----------~~~-~~~~~~~~~~~~~~~~~a~---~~~~~~l~~~  289 (334)
T 1a5t_A          257 ---------------------------------K----------RHH-GAAQVTNVDVPGLVAELAN---HLSPSRLQAI  289 (334)
T ss_dssp             ---------------------------------C----------C-------CCCTTCHHHHHHHHH---HSCHHHHHHH
T ss_pred             ---------------------------------H----------hcc-CCccccCHHHHHHHHHHHH---hCCHHHHHHH
Confidence                                             0          000 0112333444555555554   4788999999


Q ss_pred             HHHHHHHHhhhh--cCCChhHHHHHHHHHHHHH
Q psy12150        421 LEKLAECNARLQ--DGASEYIQILDLGSIVIKA  451 (456)
Q Consensus       421 ~~~l~~~~~~l~--~g~~~~~ql~~l~~~~~~~  451 (456)
                      ++.+.+++++++  .+.+..+++..++..+.+.
T Consensus       290 ~~~l~~~~~~l~~~~~~n~~l~le~ll~~l~~~  322 (334)
T 1a5t_A          290 LGDVCHIREQLMSVTGINRELLITDLLLRIEHY  322 (334)
T ss_dssp             HHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHh
Confidence            999999999999  8999999999999999864

>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=99.95  E-value=3e-26  Score=213.22  Aligned_cols=221  Identities=24%  Similarity=0.359  Sum_probs=179.6

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccc-------------
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYR-------------   96 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~-------------   96 (456)
                      ...||.++|+|.++++++|++..++.+..++..+..++ ++|+||+|+|||++++.+++.+......             
T Consensus         9 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (250)
T 1njg_A            9 SYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCRE   88 (250)
T ss_dssp             --CCHHHHTCCCSGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHH
T ss_pred             HHHHHhhccCCccHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHH
Confidence            45799999999999999999999999999999887666 9999999999999999999987542210             


Q ss_pred             ------cceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceE
Q psy12150         97 ------ERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRF  170 (456)
Q Consensus        97 ------~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~l  170 (456)
                            ..++.++.........+...+..+    ... ..    ...+.+|||||++.+....++.|++++++++..+++
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~-~~----~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~  159 (250)
T 1njg_A           89 IEQGRFVDLIEIDAASRTKVEDTRDLLDNV----QYA-PA----RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKF  159 (250)
T ss_dssp             HHTTCCSSEEEEETTCGGGHHHHHHHHHSC----CCS-CS----SSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEE
T ss_pred             HhccCCcceEEecCcccccHHHHHHHHHHh----hhc-hh----cCCceEEEEECcccccHHHHHHHHHHHhcCCCceEE
Confidence                  123445544333333333322211    100 00    124569999999999999999999999988888899


Q ss_pred             EEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCC
Q psy12150        171 CLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEG  250 (456)
Q Consensus       171 Il~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~  250 (456)
                      |++++....+.+.+.+|+..++|++++.+++.+++..++.+.+..+++++++.+++.++|++|.+.+.+++++.++ .+.
T Consensus       160 i~~t~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~~~~~~~~~~~~~~~-~~~  238 (250)
T 1njg_A          160 LLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASG-DGQ  238 (250)
T ss_dssp             EEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHTTT-TSS
T ss_pred             EEEeCChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcc-Cce
Confidence            9999988888889999999999999999999999999999999999999999999999999999999999988764 458


Q ss_pred             CCHHHHHHHhC
Q psy12150        251 IVNEDVLEVTG  261 (456)
Q Consensus       251 It~~~v~~~~~  261 (456)
                      ||.++|+++++
T Consensus       239 i~~~~v~~~~~  249 (250)
T 1njg_A          239 VSTQAVSAMLG  249 (250)
T ss_dssp             BCHHHHHHHSC
T ss_pred             ecHHHHHHHhC
Confidence            99999998875

>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=99.93  E-value=2.7e-25  Score=230.43  Aligned_cols=240  Identities=26%  Similarity=0.385  Sum_probs=176.5

Q ss_pred             CCCCCCCCcchhccCCCCcccccccHHHHHHHHHHHhcC-----------------CCCeEEEECCCCCcHHHHHHHHHH
Q psy12150         26 GKTRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGA-----------------DLPHFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        26 ~~~~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~-----------------~~~~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      ......+.+|+++|+|.+|++++|++..++.+..++...                 ..++++|+||||+|||++++++++
T Consensus        20 ~~~~~~~~lW~ekyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~   99 (516)
T 1sxj_A           20 GPHMASDKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQ   99 (516)
T ss_dssp             ------CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCccCCCcccccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            333556789999999999999999999999999998751                 234599999999999999999999


Q ss_pred             HhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhcc-C-CCCC---CCCCCCcEEEEEcCCCCccHHHH---HHHHHH
Q psy12150         89 QLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTAS-G-FNQD---GKPCPPFKIVILDEADSMTHAAQ---AALRRT  160 (456)
Q Consensus        89 ~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~-~-~~~~---~~~~~~~~iviIDE~d~l~~~~~---~~Ll~~  160 (456)
                      .++     ..++++++++......+...+......... . ....   ......+.+|||||+|.+....+   ..|+++
T Consensus       100 ~l~-----~~~i~in~s~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~  174 (516)
T 1sxj_A          100 ELG-----YDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQF  174 (516)
T ss_dssp             HTT-----CEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHH
T ss_pred             HcC-----CCEEEEeCCCcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHH
Confidence            973     378899999877665444333222111000 0 0000   00112556999999999976543   778888


Q ss_pred             HHhccCcceEEEEecCcc-cccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q psy12150        161 MEKETKSTRFCLICNYVS-CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL  239 (456)
Q Consensus       161 le~~~~~~~lIl~~~~~~-kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L  239 (456)
                      ++...  ..+|++++... ...+++.+||..+.|.+++.+++.+++..++.++++.+++++++.|++.++||+|.+++.|
T Consensus       175 l~~~~--~~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          175 CRKTS--TPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             HHHCS--SCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHhcC--CCEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHH
Confidence            87643  34555666532 4456789999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhCCCCCCHHHHHHHhC---CCCHHHHHHHHcc
Q psy12150        240 QSCARLKGGEGIVNEDVLEVTG---VIPKPWIEKLLKV  274 (456)
Q Consensus       240 ~~~~~~~~~~~It~~~v~~~~~---~~~~~~i~~l~~~  274 (456)
                      +.++.  +++.|+.+++.+++.   ......+|++++.
T Consensus       253 ~~~~~--~~~~It~~~v~~~~~~~~~~~~~~~f~~~~~  288 (516)
T 1sxj_A          253 STIST--TTKTINHENINEISKAWEKNIALKPFDIAHK  288 (516)
T ss_dssp             THHHH--HSSCCCTTHHHHHHHHHHTTTTSHHHHHHHH
T ss_pred             HHHHh--cCCCCchHHHHHHHHhhccCCCCCHHHHHHH
Confidence            98765  456899999887765   3333344544443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.91  E-value=1.8e-23  Score=205.38  Aligned_cols=212  Identities=20%  Similarity=0.221  Sum_probs=168.1

Q ss_pred             CCCCCcchhccCCCCcccccccHHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEee
Q psy12150         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (456)
Q Consensus        29 ~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~-----~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n  103 (456)
                      ......|.++|+|.+|++++|++..++.+..++..     ...++++|+||||||||++++++++.+..     .++.++
T Consensus        13 ~~~~~~~~~~~~p~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~-----~~~~~~   87 (338)
T 3pfi_A           13 YSFDETYETSLRPSNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSA-----NIKTTA   87 (338)
T ss_dssp             ----------CCCCSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTC-----CEEEEE
T ss_pred             cchhhhhhhccCCCCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCC-----CeEEec
Confidence            35667999999999999999999999999888864     33445999999999999999999998643     577788


Q ss_pred             CCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccC-----------------
Q psy12150        104 ASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK-----------------  166 (456)
Q Consensus       104 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~-----------------  166 (456)
                      +........+...+...               ....+|||||++.+..+.++.|++.+++...                 
T Consensus        88 ~~~~~~~~~~~~~~~~~---------------~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~  152 (338)
T 3pfi_A           88 APMIEKSGDLAAILTNL---------------SEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDL  152 (338)
T ss_dssp             GGGCCSHHHHHHHHHTC---------------CTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCC
T ss_pred             chhccchhHHHHHHHhc---------------cCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCC
Confidence            77655554444333220               1334999999999999999999999987531                 


Q ss_pred             -cceEEEEecCcccccccccCCc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy12150        167 -STRFCLICNYVSCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCAR  244 (456)
Q Consensus       167 -~~~lIl~~~~~~kl~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~  244 (456)
                       .+++|.++|....+.+++.+|+ ..++|++++.+++..++...+...+..+++++++.|+..++|++|.+.+.++.+..
T Consensus       153 ~~~~~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~  232 (338)
T 3pfi_A          153 PKFTLIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNKTCEEKAALEIAKRSRSTPRIALRLLKRVRD  232 (338)
T ss_dssp             CCCEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHTTTTCHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence             2678888888888899999999 69999999999999999999999999999999999999999999999999998765


Q ss_pred             hh---CCCCCCHHHHHHHh
Q psy12150        245 LK---GGEGIVNEDVLEVT  260 (456)
Q Consensus       245 ~~---~~~~It~~~v~~~~  260 (456)
                      ++   +++.|+.+++..++
T Consensus       233 ~a~~~~~~~i~~~~~~~~~  251 (338)
T 3pfi_A          233 FADVNDEEIITEKRANEAL  251 (338)
T ss_dssp             HHHHTTCSEECHHHHHHHH
T ss_pred             HHHhhcCCccCHHHHHHHH
Confidence            54   45679999887665

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.90  E-value=2.4e-22  Score=199.56  Aligned_cols=225  Identities=17%  Similarity=0.225  Sum_probs=170.5

Q ss_pred             CCCCcchhccCCCC-cccccccHHHHHH---HHHHHhcCCCC--eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEee
Q psy12150         30 NKPVPWVEKYRPKT-IDDVIEQQEVVSV---LKKCLSGADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (456)
Q Consensus        30 ~~~~~w~eky~P~~-~~~ivg~~~~~~~---l~~~l~~~~~~--~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n  103 (456)
                      ....++.++++|.. |++++|++..+..   +...+..+..+  +++|+||||+|||++++++++.+...   ..++.++
T Consensus        28 ~~~l~l~~~~~p~~~~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~---~~~~~~~  104 (368)
T 3uk6_A           28 IRGLGLDDALEPRQASQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPD---TPFTAIA  104 (368)
T ss_dssp             CCSCCBCTTSCBCSEETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSS---CCEEEEE
T ss_pred             hhccCcccccCcCcchhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhccc---CCccccc
Confidence            44578889999998 9999999998765   56666777665  59999999999999999999998642   1333333


Q ss_pred             CCC--------------------------------------------------CcC-----hHHHHHHHHHHHHhhccCC
Q psy12150        104 ASD--------------------------------------------------DRG-----IQVIRDKVKTFAQQTASGF  128 (456)
Q Consensus       104 ~~~--------------------------------------------------~~~-----~~~i~~~l~~~~~~~~~~~  128 (456)
                      +..                                                  ..+     ...+++.+..+........
T Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g  184 (368)
T 3uk6_A          105 GSEIFSLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEG  184 (368)
T ss_dssp             GGGGSCSSSCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHT
T ss_pred             chhhhhcccchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhc
Confidence            221                                                  001     2233333333322111110


Q ss_pred             CCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEec------------CcccccccccCCceEEEecCC
Q psy12150        129 NQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICN------------YVSCIIQPLTSRCSKFRFKPL  196 (456)
Q Consensus       129 ~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~------------~~~kl~~~l~~r~~~i~f~~~  196 (456)
                      ....    ...+|||||+|.+..+.++.|++.++++...+ ++++++            .+..+.+++.+||..+.|+++
T Consensus       185 ~~~~----~~~vl~IDEi~~l~~~~~~~L~~~le~~~~~~-~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~  259 (368)
T 3uk6_A          185 KAEI----IPGVLFIDEVHMLDIESFSFLNRALESDMAPV-LIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPY  259 (368)
T ss_dssp             C-------CBCEEEEESGGGSBHHHHHHHHHHTTCTTCCE-EEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCC
T ss_pred             cccc----cCceEEEhhccccChHHHHHHHHHhhCcCCCe-eeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCC
Confidence            0000    12399999999999999999999999876654 444444            245677899999999999999


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC-CCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCC
Q psy12150        197 AENTMLTRLQYICEQESVMCDFKALETLVETSG-GDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       197 ~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~-gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~~  262 (456)
                      +.+++..+++.++..++..+++++++.|++.+. ||+|.+++.|+.++.++   +...||.++|.+++..
T Consensus       260 ~~~e~~~il~~~~~~~~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~~~~~It~~~v~~a~~~  329 (368)
T 3uk6_A          260 SEKDTKQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSL  329 (368)
T ss_dssp             CHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Confidence            999999999999999999999999999999998 99999999999987776   5678999999988764

>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=99.89  E-value=6.7e-22  Score=192.87  Aligned_cols=207  Identities=22%  Similarity=0.229  Sum_probs=167.4

Q ss_pred             chhccCCCCcccccccHHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC
Q psy12150         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (456)
Q Consensus        35 w~eky~P~~~~~ivg~~~~~~~l~~~l~~-----~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~  109 (456)
                      |-++|+|.+|++++|++..+..+..++..     ....+++|+||+|||||++++++++.+..     .++.+++.....
T Consensus         2 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~-----~~~~~~~~~~~~   76 (324)
T 1hqc_A            2 EDLALRPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGV-----NLRVTSGPAIEK   76 (324)
T ss_dssp             ---CCCCCSTTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTC-----CEEEECTTTCCS
T ss_pred             CccccCcccHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEeccccCC
Confidence            56899999999999999999888888752     23345999999999999999999998743     566777776555


Q ss_pred             hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc------------------CcceEE
Q psy12150        110 IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------------------KSTRFC  171 (456)
Q Consensus       110 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~------------------~~~~lI  171 (456)
                      ...+...+..    .   .       ....+|||||++.+....++.|++.+++..                  ..+++|
T Consensus        77 ~~~l~~~l~~----~---~-------~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i  142 (324)
T 1hqc_A           77 PGDLAAILAN----S---L-------EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLI  142 (324)
T ss_dssp             HHHHHHHHTT----T---C-------CTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEE
T ss_pred             hHHHHHHHHH----h---c-------cCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEE
Confidence            4443332211    0   0       133499999999999999999999998753                  346788


Q ss_pred             EEecCcccccccccCCc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---C
Q psy12150        172 LICNYVSCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK---G  247 (456)
Q Consensus       172 l~~~~~~kl~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~---~  247 (456)
                      ++++....+.+++.+|+ ..+.|.+++.+++..++...+...+..+++++++.|+..++|++|.+.+.++.+..++   +
T Consensus       143 ~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~~~~  222 (324)
T 1hqc_A          143 GATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAG  222 (324)
T ss_dssp             EEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCSCHHHHHHHHHHHTTTSTTTS
T ss_pred             EeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhc
Confidence            88888888889999999 5999999999999999999999989999999999999999999999999999887665   3


Q ss_pred             CCCCCHHHHHHHh
Q psy12150        248 GEGIVNEDVLEVT  260 (456)
Q Consensus       248 ~~~It~~~v~~~~  260 (456)
                      .+.|+.+++..+.
T Consensus       223 ~~~i~~~~~~~~~  235 (324)
T 1hqc_A          223 EEVITRERALEAL  235 (324)
T ss_dssp             CSCCCHHHHHHHH
T ss_pred             CCCCCHHHHHHHH
Confidence            5679998887654

>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=99.87  E-value=1.5e-21  Score=181.66  Aligned_cols=213  Identities=15%  Similarity=0.222  Sum_probs=164.6

Q ss_pred             CCCCcchhccCC-CCcccccc---cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         30 NKPVPWVEKYRP-KTIDDVIE---QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        30 ~~~~~w~eky~P-~~~~~ivg---~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      ....||..+++| .+|+++++   ++..++.+..++..+...+++|+||||+|||++++++++.+.....  .+..+++.
T Consensus        12 ~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~--~~~~~~~~   89 (242)
T 3bos_A           12 PLQLSLPVHLPDDETFTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANELER--RSFYIPLG   89 (242)
T ss_dssp             -CCCEEECCCCTTCSTTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEEGG
T ss_pred             hhhcCCCCCCCCCCChhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCC--eEEEEEHH
Confidence            446799999999 79999997   3577888999888766667999999999999999999998765432  45666665


Q ss_pred             CCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH--HHHHHHHHHhccC--cceEEEEecCcc---
Q psy12150        106 DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA--QAALRRTMEKETK--STRFCLICNYVS---  178 (456)
Q Consensus       106 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~--~~~Ll~~le~~~~--~~~lIl~~~~~~---  178 (456)
                      +....  +.+.+..+               ....+|||||++.+....  ++.|+.+++....  ...+|++++...   
T Consensus        90 ~~~~~--~~~~~~~~---------------~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~  152 (242)
T 3bos_A           90 IHASI--STALLEGL---------------EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEA  152 (242)
T ss_dssp             GGGGS--CGGGGTTG---------------GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTT
T ss_pred             HHHHH--HHHHHHhc---------------cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHH
Confidence            42110  00000000               123499999999997655  7778877765432  224666776433   


Q ss_pred             -cccccccCCc---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCC
Q psy12150        179 -CIIQPLTSRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIV  252 (456)
Q Consensus       179 -kl~~~l~~r~---~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It  252 (456)
                       ...+.+.+|+   ..++|.+++.+++.+++...++..+..+++++++.+++.++||+|.+.+.+++++.++  .++.||
T Consensus       153 ~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~l~~~l~~~~~~a~~~~~~It  232 (242)
T 3bos_A          153 GFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQLPEDVGRFLLNRMARDLRTLFDVLDRLDKASMVHQRKLT  232 (242)
T ss_dssp             TCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCCCCHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHTCCCC
T ss_pred             HHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhCCCCc
Confidence             3457888998   7999999999999999999999999999999999999999999999999999998876  467899


Q ss_pred             HHHHHHHhC
Q psy12150        253 NEDVLEVTG  261 (456)
Q Consensus       253 ~~~v~~~~~  261 (456)
                      .+++++++.
T Consensus       233 ~~~v~~~l~  241 (242)
T 3bos_A          233 IPFVKEMLR  241 (242)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHhh
Confidence            999998875

>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=99.87  E-value=9e-21  Score=193.55  Aligned_cols=125  Identities=18%  Similarity=0.199  Sum_probs=112.5

Q ss_pred             EEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEe---------cC----cccccccccCCceEEEecCCCHHHHHHHH
Q psy12150        139 KIVILDEADSMTHAAQAALRRTMEKETKSTRFCLIC---------NY----VSCIIQPLTSRCSKFRFKPLAENTMLTRL  205 (456)
Q Consensus       139 ~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~---------~~----~~kl~~~l~~r~~~i~f~~~~~~el~~~l  205 (456)
                      +|+||||++.|+.++++.|++.+|+++.. +||+++         ..    +.++.+++++||..++|.+++.+++.+||
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~~~-~~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR~~~~~~~~~~~~e~~~iL  375 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSIAP-IVIFASNRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQII  375 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTTCC-EEEEEECCSEEECBTTSSCEEETTCCHHHHTTEEEEECCCCCHHHHHHHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccCCC-EEEEecCCccccccccccccccccCChhHHhhcceeeCCCCCHHHHHHHH
Confidence            59999999999999999999999999887 677777         33    66788889999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCCC
Q psy12150        206 QYICEQESVMCDFKALETLVETS-GGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVIP  264 (456)
Q Consensus       206 ~~~~~~~~~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~~~~  264 (456)
                      +.++..++..++++++..++..+ +|++|.+++.++.+..++   +.+.|+.++|.+++....
T Consensus       376 ~~~~~~~~~~~~~~~~~~i~~~a~~g~~r~a~~ll~~a~~~A~~~~~~~v~~~~v~~~~~~~~  438 (456)
T 2c9o_A          376 KIRAQTEGINISEEALNHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFY  438 (456)
T ss_dssp             HHHHHHHTCCBCHHHHHHHHHHHHHSCHHHHHHTHHHHHHHHHHTTCSSBCHHHHHHHHHHSC
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHccCCCHHHHHHHHHHHHHHHhhcCCCccCHHHHHHHHHHhc
Confidence            99999999999999999999999 999999999999986655   567899999999876553

>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=99.86  E-value=4e-20  Score=181.20  Aligned_cols=209  Identities=21%  Similarity=0.211  Sum_probs=161.4

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcC-----CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGA-----DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~-----~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      .+|.++++|++|++++|++.+++.+...+..+     .+.+++|+||||+||||++++++..++.     .+...++...
T Consensus        13 ~~~~~~lr~~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~-----~~~~~sg~~~   87 (334)
T 1in4_A           13 DSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT-----NIHVTSGPVL   87 (334)
T ss_dssp             ----CTTSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTC-----CEEEEETTTC
T ss_pred             HHHHHHcCCccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCC-----CEEEEechHh
Confidence            36799999999999999999998888877643     3355999999999999999999998854     2333344333


Q ss_pred             cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc------------------Ccce
Q psy12150        108 RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET------------------KSTR  169 (456)
Q Consensus       108 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~------------------~~~~  169 (456)
                      ....++.....    .  .         ..+++++|||++.+.+..++.|+..++...                  +.+.
T Consensus        88 ~~~~~l~~~~~----~--~---------~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~  152 (334)
T 1in4_A           88 VKQGDMAAILT----S--L---------ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFT  152 (334)
T ss_dssp             CSHHHHHHHHH----H--C---------CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCE
T ss_pred             cCHHHHHHHHH----H--c---------cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeE
Confidence            33333322211    1  0         123499999999999877888877776532                  1245


Q ss_pred             EEEEecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--
Q psy12150        170 FCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--  246 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--  246 (456)
                      ++.+++.+..+.+++++|+. .+.|.+++.+++.++++..++..++.++++++..|+..++|++|.+.+.|+.+..++  
T Consensus       153 li~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a~~  232 (334)
T 1in4_A          153 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTV  232 (334)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Confidence            66667778888899999996 689999999999999999999899999999999999999999999999999886665  


Q ss_pred             -CCCCCCHHHHHHHhC
Q psy12150        247 -GGEGIVNEDVLEVTG  261 (456)
Q Consensus       247 -~~~~It~~~v~~~~~  261 (456)
                       +.+.||.+++++++.
T Consensus       233 ~~~~~It~~~v~~al~  248 (334)
T 1in4_A          233 VKADRINTDIVLKTME  248 (334)
T ss_dssp             HTCSSBCHHHHHHHHH
T ss_pred             cCCCCcCHHHHHHHHH
Confidence             456899999988765

>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=99.86  E-value=1.2e-19  Score=181.11  Aligned_cols=224  Identities=17%  Similarity=0.210  Sum_probs=166.3

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhc----CCCC--eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG----ADLP--HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~----~~~~--~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      ..+|..+|+|   ++++|++..++.+..++..    ....  +++|+||+|+|||++++.+++.+.... ...++++++.
T Consensus         7 ~~~l~~~~~p---~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~i~~~   82 (389)
T 1fnn_A            7 DSVFSPSYVP---KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT-TARFVYINGF   82 (389)
T ss_dssp             GGGGSTTCCC---SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEETT
T ss_pred             HhhcCCccCC---CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhc-CeeEEEEeCc
Confidence            4578899999   6789999999888888764    3333  699999999999999999999885531 3367888877


Q ss_pred             CCcChHHHHHHHHHHHHhhccCCCCCCCC--------------CCCcEEEEEcCCCCccHHHHHHHHHHHHhcc----Cc
Q psy12150        106 DDRGIQVIRDKVKTFAQQTASGFNQDGKP--------------CPPFKIVILDEADSMTHAAQAALRRTMEKET----KS  167 (456)
Q Consensus       106 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~--------------~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~----~~  167 (456)
                      .......+...+.......   ....+..              .....+|||||++.+....+..|.+++++.+    ..
T Consensus        83 ~~~~~~~~~~~l~~~l~~~---~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~  159 (389)
T 1fnn_A           83 IYRNFTAIIGEIARSLNIP---FPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFR  159 (389)
T ss_dssp             TCCSHHHHHHHHHHHTTCC---CCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCC
T ss_pred             cCCCHHHHHHHHHHHhCcc---CCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCC
Confidence            6554333222211110000   0000000              0134599999999998888999999987644    36


Q ss_pred             ceEEEEecCc---ccccccccCCce--EEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHc---------CCC
Q psy12150        168 TRFCLICNYV---SCIIQPLTSRCS--KFRFKPLAENTMLTRLQYICEQE--SVMCDFKALETLVETS---------GGD  231 (456)
Q Consensus       168 ~~lIl~~~~~---~kl~~~l~~r~~--~i~f~~~~~~el~~~l~~~~~~~--~~~i~~~~l~~L~~~s---------~gd  231 (456)
                      +.+|++++..   ..+.+.+.+|+.  .++|+|++.+++.+++..++...  ...+++++++.+++.+         +||
T Consensus       160 ~~iI~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~  239 (389)
T 1fnn_A          160 IALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGD  239 (389)
T ss_dssp             EEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCC
T ss_pred             EEEEEEECCchHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCc
Confidence            7788888866   556677778876  79999999999999999998762  3478999999999999         899


Q ss_pred             HHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCC
Q psy12150        232 MRRAITCLQSCARLK---GGEGIVNEDVLEVTGV  262 (456)
Q Consensus       232 lr~~~~~L~~~~~~~---~~~~It~~~v~~~~~~  262 (456)
                      +|.+++.++.+...+   +...|+.+++..+...
T Consensus       240 ~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~~~~~  273 (389)
T 1fnn_A          240 ARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKE  273 (389)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Confidence            999999999887765   4567999998876543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.85  E-value=8.8e-20  Score=181.79  Aligned_cols=220  Identities=19%  Similarity=0.223  Sum_probs=163.5

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhc----CCCCeEEEECCCCCcHHHHHHHHHHHhcCC----ccccceEEeeC
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG----ADLPHFLFYGPPGTGKTSTMIAACHQLFGD----MYRERILELNA  104 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~----~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~----~~~~~~~e~n~  104 (456)
                      .+|..+|.|   ++++|++..++.+..++..    +...+++|+||||+|||++++.+++.+...    .....++.+|+
T Consensus        10 ~~l~~~~~p---~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~   86 (387)
T 2v1u_A           10 WVLLPDYVP---DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNA   86 (387)
T ss_dssp             HHHSTTCCC---SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEET
T ss_pred             HhcCCccCC---CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEEC
Confidence            567778888   6789999999999998854    344459999999999999999999987431    11346888888


Q ss_pred             CCCcChHHHHHHHH-------------------HHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--HHHHHHHHHHh
Q psy12150        105 SDDRGIQVIRDKVK-------------------TFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--AQAALRRTMEK  163 (456)
Q Consensus       105 ~~~~~~~~i~~~l~-------------------~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--~~~~Ll~~le~  163 (456)
                      ........+...+.                   .+.....    ..    ....+|||||+|.+...  .++.|..+++.
T Consensus        87 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~----~~----~~~~vlilDEi~~l~~~~~~~~~l~~l~~~  158 (387)
T 2v1u_A           87 RHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLS----RL----RGIYIIVLDEIDFLPKRPGGQDLLYRITRI  158 (387)
T ss_dssp             TTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHT----TS----CSEEEEEEETTTHHHHSTTHHHHHHHHHHG
T ss_pred             CcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh----cc----CCeEEEEEccHhhhcccCCCChHHHhHhhc
Confidence            76554333222211                   1111100    00    13459999999999876  66777666654


Q ss_pred             c-----cCcceEEEEecCc---ccccccccCCc--eEEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHcC--
Q psy12150        164 E-----TKSTRFCLICNYV---SCIIQPLTSRC--SKFRFKPLAENTMLTRLQYICEQ--ESVMCDFKALETLVETSG--  229 (456)
Q Consensus       164 ~-----~~~~~lIl~~~~~---~kl~~~l~~r~--~~i~f~~~~~~el~~~l~~~~~~--~~~~i~~~~l~~L~~~s~--  229 (456)
                      .     ...+++|++++..   ..+.+.+.+|+  ..+.|++++.+++..++...+..  .+..+++++++.+++.++  
T Consensus       159 ~~~~~~~~~~~~I~~t~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~  238 (387)
T 2v1u_A          159 NQELGDRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAARE  238 (387)
T ss_dssp             GGCC-----CEEEEECSCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSS
T ss_pred             hhhcCCCceEEEEEEECCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHh
Confidence            3     4567788888765   56778888998  68999999999999999999876  567889999999999998  


Q ss_pred             -CCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCC
Q psy12150        230 -GDMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       230 -gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~~~  263 (456)
                       ||+|.+++.++.+...+   +...|+.+++.+++...
T Consensus       239 ~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~a~~~~  276 (387)
T 2v1u_A          239 HGDARRALDLLRVAGEIAERRREERVRREHVYSARAEI  276 (387)
T ss_dssp             SCCHHHHHHHHHHHHHHHHHTTCSCBCHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence             99999999999987765   45689999998876543

>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=99.83  E-value=2.4e-19  Score=178.75  Aligned_cols=229  Identities=17%  Similarity=0.130  Sum_probs=160.6

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHh----cCCCCeEEEECCCCCcHHHHHHHHHHHhcCCc-----c-ccceE
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLS----GADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----Y-RERIL  100 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~----~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-----~-~~~~~  100 (456)
                      ...+|..+|+|   ++++|++..++.+..++.    ++..++++|+||||+|||++++.+++.+....     . ...++
T Consensus         9 ~~~~l~~~~~p---~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~   85 (384)
T 2qby_B            9 PKVFIDPLSVF---KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQA   85 (384)
T ss_dssp             TTTTTCHHHHC---SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEE
T ss_pred             cHhhcCCccCC---CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEE
Confidence            34689999999   678999999988876664    34445699999999999999999999873321     1 34678


Q ss_pred             EeeCCCCc-ChHHH-HHHHHHHHHhhccCCCCCCC---------CCCCcEEEEEcCCCCccHHH-HHH-HHHHHHhccCc
Q psy12150        101 ELNASDDR-GIQVI-RDKVKTFAQQTASGFNQDGK---------PCPPFKIVILDEADSMTHAA-QAA-LRRTMEKETKS  167 (456)
Q Consensus       101 e~n~~~~~-~~~~i-~~~l~~~~~~~~~~~~~~~~---------~~~~~~iviIDE~d~l~~~~-~~~-Ll~~le~~~~~  167 (456)
                      ++++.... ....+ ...+..+.............         ......+|||||+|.+.... ++. +..++... ..
T Consensus        86 ~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~-~~  164 (384)
T 2qby_B           86 YVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD-AN  164 (384)
T ss_dssp             EEEHHHHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS-SC
T ss_pred             EEECccCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC-cc
Confidence            88876533 22222 11122211000000000000         00012299999999987643 444 44444443 66


Q ss_pred             ceEEEEecCc---ccccccccCCc-eEEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHcC---CCHHHHHHH
Q psy12150        168 TRFCLICNYV---SCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQ--ESVMCDFKALETLVETSG---GDMRRAITC  238 (456)
Q Consensus       168 ~~lIl~~~~~---~kl~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~--~~~~i~~~~l~~L~~~s~---gdlr~~~~~  238 (456)
                      +++|++++..   ..+.+++.+|+ ..++|++++.+++..++..++..  .+..+++++++.+++.++   ||+|.+++.
T Consensus       165 ~~iI~~t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~  244 (384)
T 2qby_B          165 ISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNL  244 (384)
T ss_dssp             EEEEEECSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHH
T ss_pred             eEEEEEECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHH
Confidence            7888888865   56777888884 69999999999999999999875  456799999999999988   999999999


Q ss_pred             HHHHHHhhC-CCCCCHHHHHHHhCCC
Q psy12150        239 LQSCARLKG-GEGIVNEDVLEVTGVI  263 (456)
Q Consensus       239 L~~~~~~~~-~~~It~~~v~~~~~~~  263 (456)
                      ++.+...+. ...|+.+++.+++...
T Consensus       245 l~~a~~~a~~~~~i~~~~v~~~~~~~  270 (384)
T 2qby_B          245 LFRAAQLASGGGIIRKEHVDKAIVDY  270 (384)
T ss_dssp             HHHHHHHTTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCccCHHHHHHHHHHH
Confidence            999887764 4689999998876544

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.83  E-value=5.3e-19  Score=176.87  Aligned_cols=194  Identities=17%  Similarity=0.162  Sum_probs=145.8

Q ss_pred             cchhccCCCCcccccccHHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEE
Q psy12150         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSG------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (456)
Q Consensus        34 ~w~eky~P~~~~~ivg~~~~~~~l~~~l~~------------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e  101 (456)
                      .|+++|+|.+|++++|++.+++.|..++..            ....++|||||||||||++|+++++.+..     .+++
T Consensus       104 ~~~~~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~-----~~~~  178 (389)
T 3vfd_A          104 EIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNA-----TFFN  178 (389)
T ss_dssp             TTBCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTC-----EEEE
T ss_pred             hhhccCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcC-----cEEE
Confidence            699999999999999999999999988721            12345999999999999999999998643     6788


Q ss_pred             eeCCCCcCh--HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCcc-----------HHHHHHHHHHHHhc----
Q psy12150        102 LNASDDRGI--QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT-----------HAAQAALRRTMEKE----  164 (456)
Q Consensus       102 ~n~~~~~~~--~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~-----------~~~~~~Ll~~le~~----  164 (456)
                      +++++..+.  +.....+..........         ...+|||||+|.+.           ...+..|+..++..    
T Consensus       179 v~~~~l~~~~~g~~~~~~~~~~~~a~~~---------~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  249 (389)
T 3vfd_A          179 ISAASLTSKYVGEGEKLVRALFAVAREL---------QPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAG  249 (389)
T ss_dssp             ECSCCC-------CHHHHHHHHHHHHHS---------SSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC---
T ss_pred             eeHHHhhccccchHHHHHHHHHHHHHhc---------CCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccC
Confidence            888764321  11112222222222111         22499999999883           23455666666633    


Q ss_pred             cCcceEEEEecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q psy12150        165 TKSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQS  241 (456)
Q Consensus       165 ~~~~~lIl~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~  241 (456)
                      ...+++|.++|.+..+.+++.+|+. .+.|..|+.++...++..++...+..++++.+..|+..+.|+.+..++.|..
T Consensus       250 ~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          250 DDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             --CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            3457788888988899999999996 7999999999999999999999999999999999999999987766655533

>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=99.81  E-value=5.1e-19  Score=172.45  Aligned_cols=196  Identities=16%  Similarity=0.176  Sum_probs=145.9

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHh----------cC-CC-CeEEEECCCCCcHHHHHHHHHHHhcCCccccceE
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLS----------GA-DL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERIL  100 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~----------~~-~~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~  100 (456)
                      ..|..++.+.+|++++|++.+++.|++.+.          .+ .+ .++|||||||||||++++++++.+..     .++
T Consensus         6 ~~~~~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~-----~~~   80 (322)
T 3eie_A            6 TAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANS-----TFF   80 (322)
T ss_dssp             CCSEEECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTC-----EEE
T ss_pred             cceeecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCC-----CEE
Confidence            467889999999999999999999998872          22 22 34999999999999999999998743     567


Q ss_pred             EeeCCCC--cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHh---c
Q psy12150        101 ELNASDD--RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK---E  164 (456)
Q Consensus       101 e~n~~~~--~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~---~  164 (456)
                      .+++++.  ...+.....+..........         ...+|||||+|.+..           ..+..++..++.   .
T Consensus        81 ~v~~~~l~~~~~g~~~~~~~~~f~~a~~~---------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  151 (322)
T 3eie_A           81 SVSSSDLVSKWMGESEKLVKQLFAMAREN---------KPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGND  151 (322)
T ss_dssp             EEEHHHHHTTTGGGHHHHHHHHHHHHHHT---------SSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTS
T ss_pred             EEchHHHhhcccchHHHHHHHHHHHHHhc---------CCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhcccccc
Confidence            7776542  11222223333333222211         224999999999854           235667776653   3


Q ss_pred             cCcceEEEEecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Q psy12150        165 TKSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSC  242 (456)
Q Consensus       165 ~~~~~lIl~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~  242 (456)
                      ...+++|.++|.+..+.+++.+|+. .+.|+.|+.++...+++..+...+..++++.++.|++.+.| +.+.+.+.++.+
T Consensus       152 ~~~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di~~l~~~a  231 (322)
T 3eie_A          152 SQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDA  231 (322)
T ss_dssp             CCCEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHHHHHHHHH
T ss_pred             CCceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            4567788888999999999999985 78999999999999999999988888999999999999987 455555555444

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.81  E-value=1.2e-18  Score=167.70  Aligned_cols=219  Identities=17%  Similarity=0.137  Sum_probs=158.7

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceE
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERIL  100 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~------------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~  100 (456)
                      .-|.++|.|.+|++++|++.+++.+.+++..            ....+++|+||||||||++++++++.+..     .++
T Consensus         9 ~~~~~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~-----~~~   83 (297)
T 3b9p_A            9 DEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSA-----TFL   83 (297)
T ss_dssp             TTTBCCSSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTC-----EEE
T ss_pred             HHhccCCCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCC-----CeE
Confidence            3578889999999999999999999888732            12345999999999999999999998743     577


Q ss_pred             EeeCCCCcCh--HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCcc-----------HHHHHHHHHHHHhcc--
Q psy12150        101 ELNASDDRGI--QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT-----------HAAQAALRRTMEKET--  165 (456)
Q Consensus       101 e~n~~~~~~~--~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~-----------~~~~~~Ll~~le~~~--  165 (456)
                      .+++++..+.  ......+..........         ...+|||||+|.+.           ...+..|+..++..+  
T Consensus        84 ~i~~~~l~~~~~~~~~~~~~~~~~~~~~~---------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  154 (297)
T 3b9p_A           84 NISAASLTSKYVGDGEKLVRALFAVARHM---------QPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGN  154 (297)
T ss_dssp             EEESTTTSSSSCSCHHHHHHHHHHHHHHT---------CSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC--
T ss_pred             EeeHHHHhhcccchHHHHHHHHHHHHHHc---------CCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhccccc
Confidence            7777653221  11111222221111111         23499999999884           234556777777654  


Q ss_pred             ---CcceEEEEecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHH-HHHH
Q psy12150        166 ---KSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAI-TCLQ  240 (456)
Q Consensus       166 ---~~~~lIl~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~-~~L~  240 (456)
                         ..+++|.++|.+..+.+++.+|+. .+.++.|+.++...++...+...+..+++++++.+++.+.|..+..+ +.++
T Consensus       155 ~~~~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~~~g~~~~~l~~l~~  234 (297)
T 3b9p_A          155 PDGDRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAK  234 (297)
T ss_dssp             ----CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCCCcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence               346788888888889999999985 88999999999999999999988888999999999999999777555 4444


Q ss_pred             HHHHhh---------------CCCCCCHHHHHHHhCCCCH
Q psy12150        241 SCARLK---------------GGEGIVNEDVLEVTGVIPK  265 (456)
Q Consensus       241 ~~~~~~---------------~~~~It~~~v~~~~~~~~~  265 (456)
                      .++..+               ....|+.+|+..++....+
T Consensus       235 ~a~~~a~r~~~~~~~~~~~~~~~~~i~~~d~~~a~~~~~~  274 (297)
T 3b9p_A          235 DAALEPIRELNVEQVKCLDISAMRAITEQDFHSSLKRIRR  274 (297)
T ss_dssp             HHTTHHHHTCC--------CCCCCCCCHHHHHHHTTSCCC
T ss_pred             HHHHHHHHHHhhhhcccccccccCCcCHHHHHHHHHHcCC
Confidence            443322               1246889999888776543

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.80  E-value=3.1e-18  Score=168.64  Aligned_cols=206  Identities=19%  Similarity=0.249  Sum_probs=144.6

Q ss_pred             CCCcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      .-+|+++.|.+++++.|++.+.            +..+|. +|||||||||||++|+++++++..     +++.+++++.
T Consensus       144 ~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~-----~f~~v~~s~l  218 (405)
T 4b4t_J          144 DSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDC-----KFIRVSGAEL  218 (405)
T ss_dssp             SCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTC-----EEEEEEGGGG
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCC-----CceEEEhHHh
Confidence            3589999999999999988763            223333 999999999999999999999754     5777777653


Q ss_pred             c--ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHHHHHHHh--ccCcce
Q psy12150        108 R--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEK--ETKSTR  169 (456)
Q Consensus       108 ~--~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~Ll~~le~--~~~~~~  169 (456)
                      .  ..+.-...+..+...+...     .||    ||||||+|.+...              ....|+..|+.  ....++
T Consensus       219 ~sk~vGese~~vr~lF~~Ar~~-----aP~----IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~  289 (405)
T 4b4t_J          219 VQKYIGEGSRMVRELFVMAREH-----APS----IIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIK  289 (405)
T ss_dssp             SCSSTTHHHHHHHHHHHHHHHT-----CSE----EEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEE
T ss_pred             hccccchHHHHHHHHHHHHHHh-----CCc----eEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeE
Confidence            2  2223333333333333221     233    9999999998531              23456666663  345677


Q ss_pred             EEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHh
Q psy12150        170 FCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCARL  245 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~~  245 (456)
                      +|.+||.++.+++++.+  |+. .++|+.|+.++..++++.++++.+.. ++-.++.|++.+.| +-..+.+.+..++..
T Consensus       290 vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~-~dvdl~~lA~~t~G~SGADi~~l~~eA~~~  368 (405)
T 4b4t_J          290 IIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLT-RGINLRKVAEKMNGCSGADVKGVCTEAGMY  368 (405)
T ss_dssp             EEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCC-SSCCHHHHHHHCCSCCHHHHHHHHHHHHHH
T ss_pred             EEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCC-ccCCHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence            88899999999999987  665 89999999999999999888754432 22247889998876 444455555555444


Q ss_pred             h---CCCCCCHHHHHHHhC
Q psy12150        246 K---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       246 ~---~~~~It~~~v~~~~~  261 (456)
                      +   +...|+.+|+..++.
T Consensus       369 Air~~~~~vt~~Df~~Al~  387 (405)
T 4b4t_J          369 ALRERRIHVTQEDFELAVG  387 (405)
T ss_dssp             HHHTTCSBCCHHHHHHHHH
T ss_pred             HHHcCCCCcCHHHHHHHHH
Confidence            4   456799999877664

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.80  E-value=1.1e-18  Score=169.01  Aligned_cols=213  Identities=16%  Similarity=0.180  Sum_probs=155.7

Q ss_pred             CcchhccCCCCc-------c-cccccHHHHHHHHHHHh---------------cCCCCeEEEECCCCCcHHHHHHHHHHH
Q psy12150         33 VPWVEKYRPKTI-------D-DVIEQQEVVSVLKKCLS---------------GADLPHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        33 ~~w~eky~P~~~-------~-~ivg~~~~~~~l~~~l~---------------~~~~~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .++.+.|.+..+       + +++|++.+++.+.+.+.               .....+++|+||||||||++++++++.
T Consensus        11 ~~~~~~~~~~~~~~~~~~l~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~   90 (309)
T 3syl_A           11 IDLRAEYEGSGAKEVLEELDRELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGL   90 (309)
T ss_dssp             CCHHHHHHHTTHHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCChhhccccHHHHHHHHHHHccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            445556665543       3 68999999988887764               223335999999999999999999998


Q ss_pred             hcCCcc--ccceEEeeCCCCcC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCc---------cHHHHHH
Q psy12150         90 LFGDMY--RERILELNASDDRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM---------THAAQAA  156 (456)
Q Consensus        90 l~~~~~--~~~~~e~n~~~~~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l---------~~~~~~~  156 (456)
                      +.....  ...++++++++..+  .+.....+........            ..+|||||+|.+         ....++.
T Consensus        91 l~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~~------------~~vl~iDEid~l~~~~~~~~~~~~~~~~  158 (309)
T 3syl_A           91 LHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAM------------GGVLFIDEAYYLYRPDNERDYGQEAIEI  158 (309)
T ss_dssp             HHHTTSSSSCCEEEECGGGTCCSSTTCHHHHHHHHHHHHT------------TSEEEEETGGGSCCCC---CCTHHHHHH
T ss_pred             HHhcCCcCCCcEEEEcHHHhhhhcccccHHHHHHHHHhcC------------CCEEEEEChhhhccCCCcccccHHHHHH
Confidence            754222  23577777665321  1111222222222221            129999999987         6778899


Q ss_pred             HHHHHHhccCcceEEEEecCcc-----cccccccCCc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH---
Q psy12150        157 LRRTMEKETKSTRFCLICNYVS-----CIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVET---  227 (456)
Q Consensus       157 Ll~~le~~~~~~~lIl~~~~~~-----kl~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~---  227 (456)
                      |++.+++....+++|++++...     .+.++|++|+ ..++|++|+.+++..++..++.+.+..+++++++.++..   
T Consensus       159 Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~l~~~~~~  238 (309)
T 3syl_A          159 LLQVMENNRDDLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGL  238 (309)
T ss_dssp             HHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            9999999888888888886432     3468999999 699999999999999999999999999999999999986   


Q ss_pred             -----cCCCHHHHHHHHHHHHHhh-------CCCCCCHHHHH
Q psy12150        228 -----SGGDMRRAITCLQSCARLK-------GGEGIVNEDVL  257 (456)
Q Consensus       228 -----s~gdlr~~~~~L~~~~~~~-------~~~~It~~~v~  257 (456)
                           ..||+|.+.+.++.++..+       .++.++.+++.
T Consensus       239 ~~~~~~~gn~r~l~~~l~~a~~~~~~r~~~~~~~~~~~~~l~  280 (309)
T 3syl_A          239 RRNQPHFANARSIRNALDRARLRQANRLFTASSGPLDARALS  280 (309)
T ss_dssp             HTTSSSCCHHHHHHHHHHHHHHHHHHHHHHC---CEEHHHHH
T ss_pred             hccCCCCCcHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHh
Confidence                 4599999999999887522       23566666654

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.79  E-value=4.8e-18  Score=160.10  Aligned_cols=208  Identities=14%  Similarity=0.085  Sum_probs=150.0

Q ss_pred             cchhccCCCCcccccccHHHHHHHHHHHhc-----------CC-CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEE
Q psy12150         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------AD-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (456)
Q Consensus        34 ~w~eky~P~~~~~ivg~~~~~~~l~~~l~~-----------~~-~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e  101 (456)
                      +|.+++.+.+|++++|.+.+++.+.+.+..           .. ..+++|+||||||||++++++++.+..     +++.
T Consensus         1 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~-----~~~~   75 (257)
T 1lv7_A            1 MLTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV-----PFFT   75 (257)
T ss_dssp             CEEECSSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC-----CEEE
T ss_pred             CCCccCCCCCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCC-----CEEE
Confidence            589999999999999999999887766431           12 334999999999999999999998743     4667


Q ss_pred             eeCCCCcC------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--------------HHHHHHHHHH
Q psy12150        102 LNASDDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTM  161 (456)
Q Consensus       102 ~n~~~~~~------~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--------------~~~~~Ll~~l  161 (456)
                      +++.+...      ...+...+...    ...         ...++|+||+|.+..              .....++..+
T Consensus        76 i~~~~~~~~~~~~~~~~~~~~~~~a----~~~---------~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l  142 (257)
T 1lv7_A           76 ISGSDFVEMFVGVGASRVRDMFEQA----KKA---------APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEM  142 (257)
T ss_dssp             ECSCSSTTSCCCCCHHHHHHHHHHH----HTT---------CSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHH
T ss_pred             EeHHHHHHHhhhhhHHHHHHHHHHH----HHc---------CCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHh
Confidence            77665321      12222222222    111         223999999977642              2344556666


Q ss_pred             Hhc--cCcceEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC-CHHH
Q psy12150        162 EKE--TKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGG-DMRR  234 (456)
Q Consensus       162 e~~--~~~~~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~-~l~~L~~~s~g-dlr~  234 (456)
                      +..  ...+++|.++|.+..+.+++.+  |+. .+.|+.|+.++..++++..+++.+  ++++ .+..++..+.| +.|.
T Consensus       143 ~~~~~~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~--l~~~~~~~~la~~~~G~~~~d  220 (257)
T 1lv7_A          143 DGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVP--LAPDIDAAIIARGTPGFSGAD  220 (257)
T ss_dssp             HTCCSSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSC--BCTTCCHHHHHHTCTTCCHHH
T ss_pred             hCcccCCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCC--CCccccHHHHHHHcCCCCHHH
Confidence            542  3456788888888888888876  654 788999999999999988876543  3333 36778899999 9999


Q ss_pred             HHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        235 AITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       235 ~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      +.+.++.++.++   +...|+.+++.+++.
T Consensus       221 l~~l~~~a~~~a~~~~~~~i~~~~~~~a~~  250 (257)
T 1lv7_A          221 LANLVNEAALFAARGNKRVVSMVEFEKAKD  250 (257)
T ss_dssp             HHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCcccHHHHHHHHH
Confidence            999999887766   356899999987664

>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=99.79  E-value=1.6e-18  Score=172.41  Aligned_cols=218  Identities=17%  Similarity=0.238  Sum_probs=156.1

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhc----CCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc-ccceEEeeCCCC
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-RERILELNASDD  107 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~----~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~-~~~~~e~n~~~~  107 (456)
                      .+|..+|.|   ++++|++..++.+.+++..    +....++|+||+|+|||++++.+++.+..... ...++.+++...
T Consensus        11 ~~l~~~~~p---~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~   87 (386)
T 2qby_A           11 EYLLPDYIP---DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQI   87 (386)
T ss_dssp             GGGSSSCCC---SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHH
T ss_pred             hhCCCccCC---CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCC
Confidence            567778888   6789999999999998874    33445999999999999999999998743211 235666665421


Q ss_pred             cC----------------------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH----HHHHHHHHHH
Q psy12150        108 RG----------------------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH----AAQAALRRTM  161 (456)
Q Consensus       108 ~~----------------------~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~----~~~~~Ll~~l  161 (456)
                      ..                      ...+.+.+......       .+    ...+|||||++.+..    +....|.+.+
T Consensus        88 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~-------~~----~~~vlilDE~~~l~~~~~~~~l~~l~~~~  156 (386)
T 2qby_A           88 DTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRD-------YG----SQVVIVLDEIDAFVKKYNDDILYKLSRIN  156 (386)
T ss_dssp             CSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHT-------CC----SCEEEEEETHHHHHHSSCSTHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhc-------cC----CeEEEEEcChhhhhccCcCHHHHHHhhch
Confidence            11                      12222222222211       01    245999999999863    3455666666


Q ss_pred             Hh-ccCcceEEEEecCc---ccccccccCCc--eEEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHcC---C
Q psy12150        162 EK-ETKSTRFCLICNYV---SCIIQPLTSRC--SKFRFKPLAENTMLTRLQYICEQE--SVMCDFKALETLVETSG---G  230 (456)
Q Consensus       162 e~-~~~~~~lIl~~~~~---~kl~~~l~~r~--~~i~f~~~~~~el~~~l~~~~~~~--~~~i~~~~l~~L~~~s~---g  230 (456)
                      +. ....+.+|++++..   ..+.+.+.+|+  ..++|++++.+++.+++...+...  ...+++++++.+++.++   |
T Consensus       157 ~~~~~~~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G  236 (386)
T 2qby_A          157 SEVNKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHG  236 (386)
T ss_dssp             HSCCC--EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTC
T ss_pred             hhcCCCeEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcC
Confidence            54 23456777888765   45667788888  589999999999999999988753  36789999999999998   9


Q ss_pred             CHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhCCCC
Q psy12150        231 DMRRAITCLQSCARLK---GGEGIVNEDVLEVTGVIP  264 (456)
Q Consensus       231 dlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~~~~  264 (456)
                      |+|.+++.++.++..+   +...|+.+++..++....
T Consensus       237 ~~r~~~~ll~~a~~~a~~~~~~~i~~~~v~~a~~~~~  273 (386)
T 2qby_A          237 DARRALDLLRVSGEIAERMKDTKVKEEYVYMAKEEIE  273 (386)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHHHh
Confidence            9999999999887655   346899999998876543

>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=99.79  E-value=7.8e-18  Score=166.34  Aligned_cols=194  Identities=14%  Similarity=0.137  Sum_probs=143.4

Q ss_pred             chhccCCCCcccccccHHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEe
Q psy12150         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSG------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL  102 (456)
Q Consensus        35 w~eky~P~~~~~ivg~~~~~~~l~~~l~~------------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~  102 (456)
                      +.+++.|.+|++++|++.+++.|.+.+..            ....++||+||||||||++++++++.+..     .++.+
T Consensus        74 i~~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~-----~~~~i  148 (357)
T 3d8b_A           74 IMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGA-----TFFSI  148 (357)
T ss_dssp             TBCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTC-----EEEEE
T ss_pred             cccCCCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCC-----eEEEE
Confidence            56788899999999999999999988742            23345999999999999999999998643     57777


Q ss_pred             eCCCCcC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHh----cc
Q psy12150        103 NASDDRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK----ET  165 (456)
Q Consensus       103 n~~~~~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~----~~  165 (456)
                      ++++...  .......+..........         ...+|||||+|.+..           ..+..|+..++.    ..
T Consensus       149 ~~~~l~~~~~g~~~~~~~~~~~~a~~~---------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~  219 (357)
T 3d8b_A          149 SASSLTSKWVGEGEKMVRALFAVARCQ---------QPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSE  219 (357)
T ss_dssp             EGGGGCCSSTTHHHHHHHHHHHHHHHT---------CSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CC
T ss_pred             ehHHhhccccchHHHHHHHHHHHHHhc---------CCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCC
Confidence            7765322  112222222222222111         234999999988732           235566666663    23


Q ss_pred             CcceEEEEecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Q psy12150        166 KSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSC  242 (456)
Q Consensus       166 ~~~~lIl~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~  242 (456)
                      ..+++|.++|.+..+.+++.+|+. .+.+..|+.++...++...++..+..++++.++.|++.+.| ..+.+.+.++.+
T Consensus       220 ~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~t~G~s~~dl~~l~~~a  298 (357)
T 3d8b_A          220 DRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREA  298 (357)
T ss_dssp             CCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             CCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCCccHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            467788888888889999999997 78999999999999999999988889999999999999988 444444444443

>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=99.79  E-value=2.2e-18  Score=174.75  Aligned_cols=214  Identities=14%  Similarity=0.186  Sum_probs=157.0

Q ss_pred             cCCC-Cccccc-c--cHHHHHHHHHHHhcCC-CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHH
Q psy12150         39 YRPK-TIDDVI-E--QQEVVSVLKKCLSGAD-LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVI  113 (456)
Q Consensus        39 y~P~-~~~~iv-g--~~~~~~~l~~~l~~~~-~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i  113 (456)
                      ..|. +|++++ |  +......+..+..... .++++||||||+|||++++++++.+........++++++...  ...+
T Consensus        98 l~~~~tfd~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~--~~~~  175 (440)
T 2z4s_A           98 LNPDYTFENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKF--LNDL  175 (440)
T ss_dssp             CCTTCSGGGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHH--HHHH
T ss_pred             CCCCCChhhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHH--HHHH
Confidence            4443 788888 5  3444566666666543 456999999999999999999998754322345677776542  1112


Q ss_pred             HHHHH-----HHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--HHHHHHHHHHHhc-cCcceEEEEecCc-cc---cc
Q psy12150        114 RDKVK-----TFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKE-TKSTRFCLICNYV-SC---II  181 (456)
Q Consensus       114 ~~~l~-----~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--~~~~~Ll~~le~~-~~~~~lIl~~~~~-~k---l~  181 (456)
                      ...+.     .+.... .         ....+|||||++.+..  ..++.|+..++.. .....+|++++.+ ..   +.
T Consensus       176 ~~~~~~~~~~~~~~~~-~---------~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~  245 (440)
T 2z4s_A          176 VDSMKEGKLNEFREKY-R---------KKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQ  245 (440)
T ss_dssp             HHHHHTTCHHHHHHHH-T---------TTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCC
T ss_pred             HHHHHcccHHHHHHHh-c---------CCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHH
Confidence            11111     111110 0         0234999999999986  6778888887653 2334566666653 32   67


Q ss_pred             ccccCCc---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh--CCCCCCHHHH
Q psy12150        182 QPLTSRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK--GGEGIVNEDV  256 (456)
Q Consensus       182 ~~l~~r~---~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~--~~~~It~~~v  256 (456)
                      +++.+|+   ..+.|.+|+.+++..++...+...++.+++++++.|+..++||+|.+.+.|+.+..++  .+..||.+++
T Consensus       246 ~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~  325 (440)
T 2z4s_A          246 DRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEA  325 (440)
T ss_dssp             HHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHH
T ss_pred             HHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            8899998   5899999999999999999999999999999999999999999999999999988877  4668999999


Q ss_pred             HHHhCCCC
Q psy12150        257 LEVTGVIP  264 (456)
Q Consensus       257 ~~~~~~~~  264 (456)
                      .+++....
T Consensus       326 ~~~l~~~~  333 (440)
T 2z4s_A          326 ILLLKDFI  333 (440)
T ss_dssp             HHHTSTTT
T ss_pred             HHHHHHHh
Confidence            99988654

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.78  E-value=8e-18  Score=166.18  Aligned_cols=210  Identities=19%  Similarity=0.232  Sum_probs=144.6

Q ss_pred             hhccCCCCcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEe
Q psy12150         36 VEKYRPKTIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL  102 (456)
Q Consensus        36 ~eky~P~~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~  102 (456)
                      .++--..+|++|.|.+++++.|++.+.            +..+|. +|||||||||||++|+++|+++..     +++.+
T Consensus       173 ~~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~-----~fi~v  247 (437)
T 4b4t_I          173 MDKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSA-----TFLRI  247 (437)
T ss_dssp             EESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTC-----EEEEE
T ss_pred             eccCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCC-----CEEEE
Confidence            344445699999999999999988763            223333 999999999999999999999754     56777


Q ss_pred             eCCCCcC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHHHHHHHh--c
Q psy12150        103 NASDDRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEK--E  164 (456)
Q Consensus       103 n~~~~~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~Ll~~le~--~  164 (456)
                      ++++...  .+.....+..+...+...     .||    ||||||+|.+...              ....|+..++.  .
T Consensus       248 ~~s~l~sk~vGesek~ir~lF~~Ar~~-----aP~----IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~  318 (437)
T 4b4t_I          248 VGSELIQKYLGDGPRLCRQIFKVAGEN-----APS----IVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDD  318 (437)
T ss_dssp             ESGGGCCSSSSHHHHHHHHHHHHHHHT-----CSE----EEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCC
T ss_pred             EHHHhhhccCchHHHHHHHHHHHHHhc-----CCc----EEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCC
Confidence            7665321  222223333333222211     233    9999999988431              23445555553  3


Q ss_pred             cCcceEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC-CHHHHHHHH
Q psy12150        165 TKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGG-DMRRAITCL  239 (456)
Q Consensus       165 ~~~~~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~-~l~~L~~~s~g-dlr~~~~~L  239 (456)
                      ...+++|.+||.++.++++|.+  |+. .|+|+.|+.++..++++.++++..  ++++ .++.|++.+.| +-..+.+.+
T Consensus       319 ~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~--l~~dvdl~~LA~~T~GfSGADI~~l~  396 (437)
T 4b4t_I          319 RGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMN--LSEDVNLETLVTTKDDLSGADIQAMC  396 (437)
T ss_dssp             SSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSC--BCSCCCHHHHHHHCCSCCHHHHHHHH
T ss_pred             CCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCC--CCCcCCHHHHHHhCCCCCHHHHHHHH
Confidence            3467888999999999999987  665 799999999999999998887544  3332 47888988876 344444555


Q ss_pred             HHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        240 QSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       240 ~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      ..++..+   +...|+.+|+..++.
T Consensus       397 ~eA~~~Air~~~~~It~eDf~~Al~  421 (437)
T 4b4t_I          397 TEAGLLALRERRMQVTAEDFKQAKE  421 (437)
T ss_dssp             HHHHHHHHHTTCSCBCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCccCHHHHHHHHH
Confidence            5554444   456799999887764

>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=99.78  E-value=3.8e-18  Score=168.34  Aligned_cols=199  Identities=15%  Similarity=0.145  Sum_probs=139.0

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHh-----------cCCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceE
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLS-----------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERIL  100 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~-----------~~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~  100 (456)
                      ..|..++.+.+|++++|++.+++.|++++.           ...++ ++|||||||||||++++++++.+..     .++
T Consensus        39 ~~~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~-----~~~  113 (355)
T 2qp9_X           39 SAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANS-----TFF  113 (355)
T ss_dssp             --------CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTC-----EEE
T ss_pred             hhhcccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCC-----CEE
Confidence            345667888999999999999999998873           12222 3999999999999999999999743     566


Q ss_pred             EeeCCCCc--ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH-----------HHHHHHHHHHh---c
Q psy12150        101 ELNASDDR--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTMEK---E  164 (456)
Q Consensus       101 e~n~~~~~--~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~-----------~~~~Ll~~le~---~  164 (456)
                      .+++.+..  ..+.....+..........         ...+|||||+|.+...           .++.|+..++.   .
T Consensus       114 ~v~~~~l~~~~~g~~~~~~~~~f~~a~~~---------~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~  184 (355)
T 2qp9_X          114 SVSSSDLVSKWMGESEKLVKQLFAMAREN---------KPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGND  184 (355)
T ss_dssp             EEEHHHHHSCC---CHHHHHHHHHHHHHT---------SSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC--
T ss_pred             EeeHHHHhhhhcchHHHHHHHHHHHHHHc---------CCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhccccc
Confidence            66654311  1111122222222221111         2349999999998632           35667777763   3


Q ss_pred             cCcceEEEEecCcccccccccCCc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Q psy12150        165 TKSTRFCLICNYVSCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSC  242 (456)
Q Consensus       165 ~~~~~lIl~~~~~~kl~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~  242 (456)
                      ...+++|.++|.+..+.+++.+|+ ..+.+++|+.++...+++.++...+..+++..++.|++.+.| ..+.+.+.++.+
T Consensus       185 ~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~l~~~A  264 (355)
T 2qp9_X          185 SQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDA  264 (355)
T ss_dssp             -CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             CCCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            456778888899999999999999 488999999999999999999888877899999999999988 566666666665


Q ss_pred             HHh
Q psy12150        243 ARL  245 (456)
Q Consensus       243 ~~~  245 (456)
                      +..
T Consensus       265 ~~~  267 (355)
T 2qp9_X          265 LMQ  267 (355)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.78  E-value=1.1e-17  Score=167.25  Aligned_cols=206  Identities=20%  Similarity=0.247  Sum_probs=143.5

Q ss_pred             CCCcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      .-+|++|.|.+++++.|++.+.            +-.+|. +|||||||||||++|++++++++.     +++.+++++.
T Consensus       177 ~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~-----~~~~v~~s~l  251 (437)
T 4b4t_L          177 EITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGA-----NFIFSPASGI  251 (437)
T ss_dssp             SSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTC-----EEEEEEGGGT
T ss_pred             CCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCC-----CEEEEehhhh
Confidence            3489999999999999988763            223333 999999999999999999999754     5677777653


Q ss_pred             cC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--------------HHHHHHHHHHHhc--cCcce
Q psy12150        108 RG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEKE--TKSTR  169 (456)
Q Consensus       108 ~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--------------~~~~~Ll~~le~~--~~~~~  169 (456)
                      .+  .+.....+..+...+...     .||    ||||||+|.+..              .....|+..|+..  ...++
T Consensus       252 ~sk~~Gese~~ir~~F~~A~~~-----~P~----IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vi  322 (437)
T 4b4t_L          252 VDKYIGESARIIREMFAYAKEH-----EPC----IIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTK  322 (437)
T ss_dssp             CCSSSSHHHHHHHHHHHHHHHS-----CSE----EEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSE
T ss_pred             ccccchHHHHHHHHHHHHHHhc-----CCc----eeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeE
Confidence            22  222223333333332221     233    999999998842              1244566667643  34578


Q ss_pred             EEEEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHh
Q psy12150        170 FCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCARL  245 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~~  245 (456)
                      +|.+||.++.++++|.+++.   .|+|+.|+.++...+++.++++.... ++..++.|++.+.| +-..+.+.+..++..
T Consensus       323 vI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~-~d~dl~~lA~~t~G~sGADi~~l~~eA~~~  401 (437)
T 4b4t_L          323 IIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKT-GEFDFEAAVKMSDGFNGADIRNCATEAGFF  401 (437)
T ss_dssp             EEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBC-SCCCHHHHHHTCCSCCHHHHHHHHHHHHHH
T ss_pred             EEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCC-cccCHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence            88999999999999987743   79999999999999999888764432 22347888998876 344444555555444


Q ss_pred             h---CCCCCCHHHHHHHhC
Q psy12150        246 K---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       246 ~---~~~~It~~~v~~~~~  261 (456)
                      +   +...|+.+|+..++.
T Consensus       402 air~~~~~i~~~d~~~Al~  420 (437)
T 4b4t_L          402 AIRDDRDHINPDDLMKAVR  420 (437)
T ss_dssp             HHHTTCSSBCHHHHHHHHH
T ss_pred             HHHcCCCCCCHHHHHHHHH
Confidence            4   566799999877653

>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=99.77  E-value=8.2e-18  Score=162.53  Aligned_cols=209  Identities=18%  Similarity=0.231  Sum_probs=146.1

Q ss_pred             cccccHHHHHHHHHHHhc--------------CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh-
Q psy12150         46 DVIEQQEVVSVLKKCLSG--------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI-  110 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~--------------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~-  110 (456)
                      +++|++.+++.+...+..              ....+++|+||||||||++++++++.+..     .++.++++..... 
T Consensus        16 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~-----~~~~i~~~~~~~~~   90 (310)
T 1ofh_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA-----PFIKVEATKFTEVG   90 (310)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGSSCC
T ss_pred             hcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEcchhcccCC
Confidence            589999999998887754              23445999999999999999999998843     5667776543220 


Q ss_pred             --H-HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH------------HHHHHHHHHhc----------c
Q psy12150        111 --Q-VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA------------QAALRRTMEKE----------T  165 (456)
Q Consensus       111 --~-~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~------------~~~Ll~~le~~----------~  165 (456)
                        . .....+..+...........    ....+|||||+|.+....            ++.|+++++..          .
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~  166 (310)
T 1ofh_A           91 YVGKEVDSIIRDLTDSAGGAIDAV----EQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKT  166 (310)
T ss_dssp             SGGGSTTHHHHHHHHTTTTCHHHH----HHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEEC
T ss_pred             ccCccHHHHHHHHHHHhhHHHhhc----cCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEecccccccC
Confidence              0 00111122111100000000    013399999999997543            78899999863          2


Q ss_pred             CcceEEEEe----cCcccccccccCCce-EEEecCCCHHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHH
Q psy12150        166 KSTRFCLIC----NYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQY-----------ICEQESV--MCDFKALETLVET  227 (456)
Q Consensus       166 ~~~~lIl~~----~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~-----------~~~~~~~--~i~~~~l~~L~~~  227 (456)
                      ..+++|+++    +.+..+.+++.+|+. .++|++++.+++..+++.           .+...+.  .+++++++.|++.
T Consensus       167 ~~~~~i~~~~~~~~~~~~l~~~l~~R~~~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~  246 (310)
T 1ofh_A          167 DHILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEA  246 (310)
T ss_dssp             TTCEEEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHHH
T ss_pred             CcEEEEEcCCcccCCcccCCHHHHhhCCceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHHHhcCCeeccCHHHHHHHHHH
Confidence            356677664    345678889999996 699999999999999883           3333453  6899999999998


Q ss_pred             c--------CCCHHHHHHHHHHHHHh-----h-C-CC--CCCHHHHHHHhCCC
Q psy12150        228 S--------GGDMRRAITCLQSCARL-----K-G-GE--GIVNEDVLEVTGVI  263 (456)
Q Consensus       228 s--------~gdlr~~~~~L~~~~~~-----~-~-~~--~It~~~v~~~~~~~  263 (456)
                      +        .||+|.+.+.++.+...     . . +.  .|+.++|.+++...
T Consensus       247 ~~~~~~~~~~g~~R~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~v~~~l~~~  299 (310)
T 1ofh_A          247 AFRVNEKTENIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADALGEV  299 (310)
T ss_dssp             HHHHHHHSCCCTTHHHHHHHHHHSHHHHHHGGGCTTCEEEECHHHHHHHTCSS
T ss_pred             hhhhcccccccCcHHHHHHHHHHHHhhhcCCccccCCEEEEeeHHHHHHHHhh
Confidence            8        79999999999987632     1 1 22  49999999988754

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.77  E-value=1.1e-17  Score=167.07  Aligned_cols=209  Identities=21%  Similarity=0.241  Sum_probs=143.4

Q ss_pred             CCCCcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         40 RPKTIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        40 ~P~~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      -+.+|+++.|.+.+++.|++.+.            +..+|. +|||||||||||++|+++++++..     +++.+++++
T Consensus       176 p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~-----~f~~v~~s~  250 (434)
T 4b4t_M          176 PTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNA-----TFLKLAAPQ  250 (434)
T ss_dssp             CSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTC-----EEEEEEGGG
T ss_pred             CCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCC-----CEEEEehhh
Confidence            34589999999999999987752            223333 999999999999999999999754     567777665


Q ss_pred             CcC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------H---HHHHHHHHHHhc--cCcc
Q psy12150        107 DRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------A---AQAALRRTMEKE--TKST  168 (456)
Q Consensus       107 ~~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~---~~~~Ll~~le~~--~~~~  168 (456)
                      ...  .+.....+..+...+...     .||    ||||||+|.+..           .   ....|+..|+..  ...+
T Consensus       251 l~~~~vGese~~ir~lF~~A~~~-----aP~----IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~V  321 (434)
T 4b4t_M          251 LVQMYIGEGAKLVRDAFALAKEK-----APT----IIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRV  321 (434)
T ss_dssp             GCSSCSSHHHHHHHHHHHHHHHH-----CSE----EEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSS
T ss_pred             hhhcccchHHHHHHHHHHHHHhc-----CCe----EEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCE
Confidence            321  122222333322222111     223    999999998732           1   234566666643  3456


Q ss_pred             eEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHH
Q psy12150        169 RFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCAR  244 (456)
Q Consensus       169 ~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~  244 (456)
                      ++|.+||.++.+++++.+  |+. .++|+.|+.++..++++.++++.... ++-.++.|++.+.| +-..+.+.+..++.
T Consensus       322 iVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~-~dvdl~~lA~~t~G~sGADi~~l~~eA~~  400 (434)
T 4b4t_M          322 KVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTD-DDINWQELARSTDEFNGAQLKAVTVEAGM  400 (434)
T ss_dssp             EEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBC-SCCCHHHHHHHCSSCCHHHHHHHHHHHHH
T ss_pred             EEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCC-CcCCHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence            788899999999999987  665 89999999999999999888765432 12237788988876 34444455554444


Q ss_pred             hh---CCCCCCHHHHHHHhCCC
Q psy12150        245 LK---GGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       245 ~~---~~~~It~~~v~~~~~~~  263 (456)
                      .+   +...|+.+|+..++...
T Consensus       401 ~a~r~~~~~i~~~Df~~Al~~v  422 (434)
T 4b4t_M          401 IALRNGQSSVKHEDFVEGISEV  422 (434)
T ss_dssp             HHHHHTCSSBCHHHHHHHHHSC
T ss_pred             HHHHcCCCCcCHHHHHHHHHHH
Confidence            43   56789999998877654

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.77  E-value=9.4e-18  Score=160.44  Aligned_cols=209  Identities=15%  Similarity=0.143  Sum_probs=144.9

Q ss_pred             ccCCCCcccccccHHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC
Q psy12150         38 KYRPKTIDDVIEQQEVVSVLKKCLSG-------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        38 ky~P~~~~~ivg~~~~~~~l~~~l~~-------------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      ...+.+|++++|++..++.+.+++..             ....+++|+||||||||++++++++.+..     .++.+++
T Consensus        10 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~-----~~~~v~~   84 (285)
T 3h4m_A           10 ERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNA-----TFIRVVG   84 (285)
T ss_dssp             SSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTC-----EEEEEEG
T ss_pred             CCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCC-----CEEEEeh
Confidence            34456899999999999999888743             23345999999999999999999998743     5666666


Q ss_pred             CCCcC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCc-----------cHHHHHHHHHHHHh-----ccC
Q psy12150        105 SDDRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM-----------THAAQAALRRTMEK-----ETK  166 (456)
Q Consensus       105 ~~~~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l-----------~~~~~~~Ll~~le~-----~~~  166 (456)
                      .+...  .......+..........         ...+|||||+|.+           ....+..+...++.     ...
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~  155 (285)
T 3h4m_A           85 SELVKKFIGEGASLVKDIFKLAKEK---------APSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARG  155 (285)
T ss_dssp             GGGCCCSTTHHHHHHHHHHHHHHHT---------CSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSS
T ss_pred             HHHHHhccchHHHHHHHHHHHHHHc---------CCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCC
Confidence            54211  122222222222222111         2249999999988           33445555555542     334


Q ss_pred             cceEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Q psy12150        167 STRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSC  242 (456)
Q Consensus       167 ~~~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~  242 (456)
                      .+++|+++|.+..+.+++.+  |+. .+.|++|+.++..++++..++..+.. .+..+..++..+.| ..+.+.+.+..+
T Consensus       156 ~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a  234 (285)
T 3h4m_A          156 DVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLA-EDVNLEEIAKMTEGCVGAELKAICTEA  234 (285)
T ss_dssp             SEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHHCTTCCHHHHHHHHHHH
T ss_pred             CEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCC-CcCCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            67788888888888888887  775 89999999999999999988765543 33346778888876 555666666655


Q ss_pred             HHhh---CCCCCCHHHHHHHhC
Q psy12150        243 ARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       243 ~~~~---~~~~It~~~v~~~~~  261 (456)
                      ...+   +...|+.+++.+++.
T Consensus       235 ~~~a~~~~~~~I~~~d~~~al~  256 (285)
T 3h4m_A          235 GMNAIRELRDYVTMDDFRKAVE  256 (285)
T ss_dssp             HHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHhccCcCCHHHHHHHHH
Confidence            5444   566799999988764

>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=99.77  E-value=4.1e-17  Score=153.84  Aligned_cols=207  Identities=14%  Similarity=0.076  Sum_probs=136.3

Q ss_pred             CCCcccccccHHHHHHHHHHHhc------------CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLSG------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~~------------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      +.+|++++|++.+++.+++.+..            ....+++|+||||||||++++++++.+..     .++.+++++..
T Consensus         2 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~-----~~~~~~~~~~~   76 (262)
T 2qz4_A            2 GVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQV-----PFLAMAGAEFV   76 (262)
T ss_dssp             CCCTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTC-----CEEEEETTTTS
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CEEEechHHHH
Confidence            35799999999999888776531            12334999999999999999999998743     56777776532


Q ss_pred             C--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH------------HHHH---HHHHHHHh--ccCcce
Q psy12150        109 G--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH------------AAQA---ALRRTMEK--ETKSTR  169 (456)
Q Consensus       109 ~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~------------~~~~---~Ll~~le~--~~~~~~  169 (456)
                      .  .......+..........         ...+|||||+|.+..            ..+.   .++..++.  ....++
T Consensus        77 ~~~~~~~~~~~~~~~~~a~~~---------~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~  147 (262)
T 2qz4_A           77 EVIGGLGAARVRSLFKEARAR---------APCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVI  147 (262)
T ss_dssp             SSSTTHHHHHHHHHHHHHHHT---------CSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEE
T ss_pred             hhccChhHHHHHHHHHHHHhc---------CCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEE
Confidence            2  111112222222221111         224999999999842            2223   33444443  234677


Q ss_pred             EEEEecCcccccccccC--Cc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCC-HHHHHHHHHHHHH
Q psy12150        170 FCLICNYVSCIIQPLTS--RC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKA-LETLVETSGGD-MRRAITCLQSCAR  244 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~--r~-~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~-l~~L~~~s~gd-lr~~~~~L~~~~~  244 (456)
                      +|.++|.+..+.+++.+  |+ ..+.|++|+.++..++++..+++.+...+.+. ...++..+.|. .+.+.+.++.++.
T Consensus       148 vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~~a~~  227 (262)
T 2qz4_A          148 VLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAAL  227 (262)
T ss_dssp             EEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHHHHHT
T ss_pred             EEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHHHHHH
Confidence            88888888888888888  87 48899999999999999999998888777664 57889888774 4567777777665


Q ss_pred             hh---CCCCCCHHHHHHHhC
Q psy12150        245 LK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       245 ~~---~~~~It~~~v~~~~~  261 (456)
                      .+   +...|+.+++..++.
T Consensus       228 ~a~~~~~~~i~~~d~~~a~~  247 (262)
T 2qz4_A          228 HAAREGHTSVHTLNFEYAVE  247 (262)
T ss_dssp             C--------CCBCCHHHHHH
T ss_pred             HHHHcCCCCCCHHHHHHHHH
Confidence            54   245677777665543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.75  E-value=4.4e-17  Score=158.61  Aligned_cols=195  Identities=15%  Similarity=0.130  Sum_probs=139.8

Q ss_pred             hccCCCCcccccccHHHHHHHHHHHh----------c-CCC-CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC
Q psy12150         37 EKYRPKTIDDVIEQQEVVSVLKKCLS----------G-ADL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        37 eky~P~~~~~ivg~~~~~~~l~~~l~----------~-~~~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      .++.+.+|++++|.+.+++.|++.+.          + ..+ .++|||||||||||++++++++.+.+    ..++.+++
T Consensus         4 ~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~----~~~~~i~~   79 (322)
T 1xwi_A            4 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN----STFFSISS   79 (322)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTS----CEEEEEEC
T ss_pred             ecCCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCC----CcEEEEEh
Confidence            34556789999999999999988773          1 122 34999999999999999999998732    25667776


Q ss_pred             CCCcCh--HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHh---ccCcc
Q psy12150        105 SDDRGI--QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK---ETKST  168 (456)
Q Consensus       105 ~~~~~~--~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~---~~~~~  168 (456)
                      ++....  +.....+..........         ...+|||||+|.+..           ...+.|+..++.   ....+
T Consensus        80 ~~l~~~~~g~~~~~~~~lf~~a~~~---------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v  150 (322)
T 1xwi_A           80 SDLVSKWLGESEKLVKNLFQLAREN---------KPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGI  150 (322)
T ss_dssp             CSSCCSSCCSCHHHHHHHHHHHHHT---------SSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTE
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHHhc---------CCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCE
Confidence            653211  11111222222221111         234999999999832           234556666664   34567


Q ss_pred             eEEEEecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHHHH
Q psy12150        169 RFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGD-MRRAITCLQSCAR  244 (456)
Q Consensus       169 ~lIl~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gd-lr~~~~~L~~~~~  244 (456)
                      ++|.++|.+..+.+++.+|+. .+.++.|+.++...+++..+...+..+++..++.|++.+.|. .+.+.+.++.++.
T Consensus       151 ~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~A~~  228 (322)
T 1xwi_A          151 LVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALM  228 (322)
T ss_dssp             EEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTCTTCCHHHHHHHHHHHHT
T ss_pred             EEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            788888999999999999994 899999999999999999998888888999999999999885 5555555555543

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.75  E-value=2.2e-17  Score=158.83  Aligned_cols=205  Identities=8%  Similarity=0.091  Sum_probs=141.4

Q ss_pred             chhccCCCCcccccccHHHHHHHH----HHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCC-----ccccceEEeeCC
Q psy12150         35 WVEKYRPKTIDDVIEQQEVVSVLK----KCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD-----MYRERILELNAS  105 (456)
Q Consensus        35 w~eky~P~~~~~ivg~~~~~~~l~----~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~-----~~~~~~~e~n~~  105 (456)
                      ..+.|.|..  -+.+++..++.+.    ..+.++..++++|+||||||||++++.+++++...     ...+.++++||.
T Consensus        12 l~~~~~~~~--~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~   89 (318)
T 3te6_A           12 IRESLQKRE--LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDAL   89 (318)
T ss_dssp             HHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETT
T ss_pred             hhhccCCcc--ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEecc
Confidence            344555532  2778887776665    44566777779999999999999999999998532     113578899988


Q ss_pred             CCcChHHHHHHH-HHHHH-------------hhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHh---ccCcc
Q psy12150        106 DDRGIQVIRDKV-KTFAQ-------------QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEK---ETKST  168 (456)
Q Consensus       106 ~~~~~~~i~~~l-~~~~~-------------~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~---~~~~~  168 (456)
                      .......+...+ ..+..             ..+... .  .......||++||+|.+.  .++.|..+++.   ....+
T Consensus        90 ~~~t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~-~--~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~  164 (318)
T 3te6_A           90 ELAGMDALYEKIWFAISKENLCGDISLEALNFYITNV-P--KAKKRKTLILIQNPENLL--SEKILQYFEKWISSKNSKL  164 (318)
T ss_dssp             CCC--HHHHHHHHHHHSCCC--CCCCHHHHHHHHHHS-C--GGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCE
T ss_pred             ccCCHHHHHHHHHHHhcCCCCCchHHHHHHHHHHHHh-h--hccCCceEEEEecHHHhh--cchHHHHHHhcccccCCcE
Confidence            755443332222 11100             000000 0  000134599999999998  56666666653   33456


Q ss_pred             eEEEEecCcc----cccccccCCc--eEEEecCCCHHHHHHHHHHHHHHcCC----------------------------
Q psy12150        169 RFCLICNYVS----CIIQPLTSRC--SKFRFKPLAENTMLTRLQYICEQESV----------------------------  214 (456)
Q Consensus       169 ~lIl~~~~~~----kl~~~l~~r~--~~i~f~~~~~~el~~~l~~~~~~~~~----------------------------  214 (456)
                      ++|+++|...    .+.+++++|+  .++.|+|++.+++.++++.+++....                            
T Consensus       165 ~vI~i~n~~d~~~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~  244 (318)
T 3te6_A          165 SIICVGGHNVTIREQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIPD  244 (318)
T ss_dssp             EEEEECCSSCCCHHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECTTCCEEECCCC--------CT
T ss_pred             EEEEEecCcccchhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHHHhhhccccccccccccccccccccccccccccc
Confidence            7788887642    3566778887  57999999999999999999886321                            


Q ss_pred             -------CCCHHHHHHHHH---HcCCCHHHHHHHHHHHHHhh
Q psy12150        215 -------MCDFKALETLVE---TSGGDMRRAITCLQSCARLK  246 (456)
Q Consensus       215 -------~i~~~~l~~L~~---~s~gdlr~~~~~L~~~~~~~  246 (456)
                             .+++++++.+++   ...||+|.+++.|+.++..+
T Consensus       245 ~~~~~~~~i~~~ai~~~A~~vA~~~GD~R~Al~ilr~A~~~a  286 (318)
T 3te6_A          245 NVIVINHKINNKITQLIAKNVANVSGSTEKAFKICEAAVEIS  286 (318)
T ss_dssp             TEEEECEECCHHHHHHHHHHHHHHHCSHHHHHHHHHHHHHHH
T ss_pred             cccccccccCHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHH
Confidence                   379999999998   56899999999999988765

>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=99.75  E-value=1.9e-17  Score=161.47  Aligned_cols=186  Identities=16%  Similarity=0.207  Sum_probs=135.5

Q ss_pred             Cccccc-c--cHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHH
Q psy12150         43 TIDDVI-E--QQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV  117 (456)
Q Consensus        43 ~~~~iv-g--~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l  117 (456)
                      +|++++ |  +......+..++....  ..+++|+||||+|||++++++++.+...  ...++++++.+.  ...+...+
T Consensus         9 ~f~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~--~~~~~~i~~~~~--~~~~~~~~   84 (324)
T 1l8q_A            9 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSSADDF--AQAMVEHL   84 (324)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEEHHHH--HHHHHHHH
T ss_pred             CcccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC--CCEEEEEEHHHH--HHHHHHHH
Confidence            677887 4  4455667777776643  3459999999999999999999987433  235777776542  11111111


Q ss_pred             -----HHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--HHHHHHHHHHHhc-cCcceEEEEecCc-c---ccccccc
Q psy12150        118 -----KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKE-TKSTRFCLICNYV-S---CIIQPLT  185 (456)
Q Consensus       118 -----~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--~~~~~Ll~~le~~-~~~~~lIl~~~~~-~---kl~~~l~  185 (456)
                           ..+.....           ...+|||||++.+..  ..++.++..++.. .....+|++++.. .   .+.+++.
T Consensus        85 ~~~~~~~~~~~~~-----------~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~  153 (324)
T 1l8q_A           85 KKGTINEFRNMYK-----------SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLV  153 (324)
T ss_dssp             HHTCHHHHHHHHH-----------TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHH
T ss_pred             HcCcHHHHHHHhc-----------CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhh
Confidence                 11111100           123999999999975  5677777776542 2234555666543 3   4678899


Q ss_pred             CCc---eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy12150        186 SRC---SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARL  245 (456)
Q Consensus       186 ~r~---~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~  245 (456)
                      +|+   ..++|++ +.++...++...+...+..+++++++.|+..+ ||+|.+.+.++.++.+
T Consensus       154 sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~~l~~~~l~~l~~~~-g~~r~l~~~l~~~~~~  214 (324)
T 1l8q_A          154 SRFEGGILVEIEL-DNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-KNVREIEGKIKLIKLK  214 (324)
T ss_dssp             HHHHTSEEEECCC-CHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-SSHHHHHHHHHHHHHH
T ss_pred             hcccCceEEEeCC-CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhC-CCHHHHHHHHHHHHHc
Confidence            998   6899999 99999999999999999999999999999999 9999999999998876

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.75  E-value=7.2e-18  Score=164.93  Aligned_cols=214  Identities=15%  Similarity=0.124  Sum_probs=156.4

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHH
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV  112 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~  112 (456)
                      .+|.++++|..+++++|++..+..+...+..+  .+++|+||||||||++++++++.+..     .+..+++........
T Consensus        15 ~~~~~~~~~~~~~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~~~-----~~~~i~~~~~~~~~~   87 (331)
T 2r44_A           15 RNKIKEVIDEVGKVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTMDL-----DFHRIQFTPDLLPSD   87 (331)
T ss_dssp             HHHHHHHHHHHTTTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHTTC-----CEEEEECCTTCCHHH
T ss_pred             HHHHHHHHHHhccceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHhCC-----CeEEEecCCCCChhh
Confidence            57999999999999999999999998888765  36999999999999999999998744     455566543222221


Q ss_pred             HHHHHHHHHHhhccCCC-----CCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc-----------cCcceEEEEecC
Q psy12150        113 IRDKVKTFAQQTASGFN-----QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRFCLICNY  176 (456)
Q Consensus       113 i~~~l~~~~~~~~~~~~-----~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~-----------~~~~~lIl~~~~  176 (456)
                      +.       ........     ....+. ...++||||++.+....++.|++.+++.           +..++++.++|.
T Consensus        88 l~-------g~~~~~~~~~~~~~~~g~l-~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np  159 (331)
T 2r44_A           88 LI-------GTMIYNQHKGNFEVKKGPV-FSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNP  159 (331)
T ss_dssp             HH-------EEEEEETTTTEEEEEECTT-CSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECT
T ss_pred             cC-------CceeecCCCCceEeccCcc-cccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCC
Confidence            11       10000000     000000 1249999999999999999999999864           334555555553


Q ss_pred             c-----ccccccccCCce-EEEecCCCHHHHHHHHHHHHHH----------------------cCCCCCHHHHHHHHHHc
Q psy12150        177 V-----SCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ----------------------ESVMCDFKALETLVETS  228 (456)
Q Consensus       177 ~-----~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~----------------------~~~~i~~~~l~~L~~~s  228 (456)
                      .     ..+.+++.+|+. .+.+.+|+.++..++++..+..                      .++.+++++++.++..+
T Consensus       160 ~~~~~~~~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~v~~~~~~~~~i~~~~  239 (331)
T 2r44_A          160 VEQEGTYPLPEAQVDRFMMKIHLTYLDKESELEVMRRVSNMNFNYQVQKIVSKNDVLEIRNEINKVTISESLEKYIIELV  239 (331)
T ss_dssp             TCCSCCCCCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHCTTCCCCCCCCSCHHHHHHHHHHHHTCBCCHHHHHHHHHHH
T ss_pred             CcccCcccCCHHHHhheeEEEEcCCCCHHHHHHHHHhccccCcchhccccCCHHHHHHHHHHhccCCCCHHHHHHHHHHH
Confidence            2     237789999998 5999999999999999887764                      26778999999988654


Q ss_pred             -----CC---------------CHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        229 -----GG---------------DMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       229 -----~g---------------dlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                           .+               ++|.+++.++.+..++   +...|+.+||.+++.
T Consensus       240 ~~~r~~~~~~~~~~~~~~~~~~s~R~~~~ll~~a~a~A~l~g~~~v~~~dv~~~~~  295 (331)
T 2r44_A          240 FATRFPAEYGLEAEASYILYGASTRAAINLNRVAKAMAFFNNRDYVLPEDIKEVAY  295 (331)
T ss_dssp             HHHHSGGGGTCHHHHHHEEECCCHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHH
T ss_pred             HHHhccccccccccccccccCcChhHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence                 22               6999999887765554   556799999987664

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.75  E-value=1.1e-16  Score=159.78  Aligned_cols=205  Identities=20%  Similarity=0.233  Sum_probs=140.9

Q ss_pred             CCcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      .+|+++.|.+.+++.|++.+.            +..+|. +|||||||||||++|+++|++++.     +++.+++++..
T Consensus       169 v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~-----~~~~v~~~~l~  243 (428)
T 4b4t_K          169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKA-----AFIRVNGSEFV  243 (428)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTC-----EEEEEEGGGTC
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CeEEEecchhh
Confidence            489999999999999988763            223333 999999999999999999999754     56777766532


Q ss_pred             C--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--------------HHHHHHHHHHHhc--cCcceE
Q psy12150        109 G--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEKE--TKSTRF  170 (456)
Q Consensus       109 ~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--------------~~~~~Ll~~le~~--~~~~~l  170 (456)
                      +  .+.....+......+...     .||    ++||||+|.+..              .....|+..|+..  ..++++
T Consensus       244 ~~~~Ge~e~~ir~lF~~A~~~-----aP~----IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~v  314 (428)
T 4b4t_K          244 HKYLGEGPRMVRDVFRLAREN-----APS----IIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKV  314 (428)
T ss_dssp             CSSCSHHHHHHHHHHHHHHHT-----CSE----EEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEE
T ss_pred             ccccchhHHHHHHHHHHHHHc-----CCC----eeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEE
Confidence            1  222223333333322211     233    999999987632              1345566667643  346788


Q ss_pred             EEEecCcccccccccC--Cce-EEEec-CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHh
Q psy12150        171 CLICNYVSCIIQPLTS--RCS-KFRFK-PLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCARL  245 (456)
Q Consensus       171 Il~~~~~~kl~~~l~~--r~~-~i~f~-~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~~  245 (456)
                      |.+||.++.+.+++.+  |+. .|+|+ .|+.++...+++.++++.+.. ++..++.|+..+.| +-..+.+.+..++..
T Consensus       315 I~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~-~~~dl~~lA~~t~G~sgadi~~l~~eA~~~  393 (428)
T 4b4t_K          315 IMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLA-PEADLDSLIIRNDSLSGAVIAAIMQEAGLR  393 (428)
T ss_dssp             EEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBC-TTCCHHHHHHHTTTCCHHHHHHHHHHHHHH
T ss_pred             EEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCC-cccCHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence            8899999999999987  554 78895 688999999999888754432 22347888988876 344445555555444


Q ss_pred             h---CCCCCCHHHHHHHhC
Q psy12150        246 K---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       246 ~---~~~~It~~~v~~~~~  261 (456)
                      +   +...|+.+|+.+++.
T Consensus       394 a~r~~~~~i~~~d~~~A~~  412 (428)
T 4b4t_K          394 AVRKNRYVILQSDLEEAYA  412 (428)
T ss_dssp             HHHTTCSSBCHHHHHHHHH
T ss_pred             HHHCCCCCCCHHHHHHHHH
Confidence            3   566799999887653

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.74  E-value=5.1e-17  Score=162.00  Aligned_cols=205  Identities=19%  Similarity=0.214  Sum_probs=140.0

Q ss_pred             CCcccccccHHHHHHHHHHHh------------cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLS------------GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~------------~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      -+|++|.|.+++++.|++.+.            +..+|. +|||||||||||++|+++|+++..     +++.+++++..
T Consensus       206 vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~-----~fi~vs~s~L~  280 (467)
T 4b4t_H          206 VTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDA-----TFIRVIGSELV  280 (467)
T ss_dssp             CCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTC-----EEEEEEGGGGC
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCC-----CeEEEEhHHhh
Confidence            589999999999999987752            223333 999999999999999999999754     56777766532


Q ss_pred             C--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHHHHHHHhc--cCcceE
Q psy12150        109 G--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEKE--TKSTRF  170 (456)
Q Consensus       109 ~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~Ll~~le~~--~~~~~l  170 (456)
                      +  .+.-...+..+...+...     .||    ||||||+|.+...              ....++..|+..  ...+++
T Consensus       281 sk~vGesek~ir~lF~~Ar~~-----aP~----IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViV  351 (467)
T 4b4t_H          281 QKYVGEGARMVRELFEMARTK-----KAC----IIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKV  351 (467)
T ss_dssp             CCSSSHHHHHHHHHHHHHHHT-----CSE----EEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEE
T ss_pred             cccCCHHHHHHHHHHHHHHhc-----CCc----eEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEE
Confidence            1  222223333333322211     233    9999999988421              233455555532  345778


Q ss_pred             EEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHhh
Q psy12150        171 CLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCARLK  246 (456)
Q Consensus       171 Il~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~~~  246 (456)
                      |.+||.++.+.+++.+  |+. .++|+.|+.++..++++.+++..... .+-.++.|++.+.| +-..+.+.+..++..+
T Consensus       352 IaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~-~dvdl~~LA~~T~GfSGADI~~l~~eAa~~A  430 (467)
T 4b4t_H          352 MFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVE-RGIRWELISRLCPNSTGAELRSVCTEAGMFA  430 (467)
T ss_dssp             EEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBC-SSCCHHHHHHHCCSCCHHHHHHHHHHHHHHH
T ss_pred             EeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHHCCCCCHHHHHHHHHHHHHHH
Confidence            8889999999999987  665 89999999999999999888754332 12236788988876 3344444444444433


Q ss_pred             ---CCCCCCHHHHHHHhC
Q psy12150        247 ---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       247 ---~~~~It~~~v~~~~~  261 (456)
                         +...|+.+|+..++.
T Consensus       431 ir~~~~~it~~Df~~Al~  448 (467)
T 4b4t_H          431 IRARRKVATEKDFLKAVD  448 (467)
T ss_dssp             HHHTCSSBCHHHHHHHHH
T ss_pred             HHcCCCccCHHHHHHHHH
Confidence               567889998877653

>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=99.73  E-value=4.1e-17  Score=165.72  Aligned_cols=195  Identities=14%  Similarity=0.147  Sum_probs=141.3

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHh----------c-CCC-CeEEEECCCCCcHHHHHHHHHHHhcCCccccceE
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLS----------G-ADL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERIL  100 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~----------~-~~~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~  100 (456)
                      .-+..++.+.+|++++|++.+++.|.+.+.          + ..+ .++|||||||||||++++++++.+.+    ..++
T Consensus       122 ~~i~~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~----~~~~  197 (444)
T 2zan_A          122 GAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN----STFF  197 (444)
T ss_dssp             --CBCCCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCS----SEEE
T ss_pred             cceeccCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCC----CCEE
Confidence            345667888899999999999999998872          1 122 34999999999999999999998722    2566


Q ss_pred             EeeCCCCcCh------HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHh
Q psy12150        101 ELNASDDRGI------QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEK  163 (456)
Q Consensus       101 e~n~~~~~~~------~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~  163 (456)
                      .+++++..+.      ..+...+.... .   .         ...||||||+|.+..           ..++.|+..++.
T Consensus       198 ~v~~~~l~~~~~g~~~~~~~~~f~~a~-~---~---------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~  264 (444)
T 2zan_A          198 SISSSDLVSKWLGESEKLVKNLFQLAR-E---N---------KPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQG  264 (444)
T ss_dssp             EECCC---------CCCTHHHHHHHHH-H---S---------CSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTC
T ss_pred             EEeHHHHHhhhcchHHHHHHHHHHHHH-H---c---------CCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhC
Confidence            7776653211      11222222111 1   1         234999999999832           345566666654


Q ss_pred             ---ccCcceEEEEecCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHH
Q psy12150        164 ---ETKSTRFCLICNYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITC  238 (456)
Q Consensus       164 ---~~~~~~lIl~~~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~  238 (456)
                         ....+++|.++|.+..+.+++.+|+. .+.++.|+.++...+++.++...+..+++..++.|+..+.| ..+.+.+.
T Consensus       265 ~~~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l  344 (444)
T 2zan_A          265 VGVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISII  344 (444)
T ss_dssp             SSCCCSSCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEECCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             cccCCCCEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHH
Confidence               34567888899999999999999995 88999999999999999999887777899999999999988 55566666


Q ss_pred             HHHHHH
Q psy12150        239 LQSCAR  244 (456)
Q Consensus       239 L~~~~~  244 (456)
                      ++.++.
T Consensus       345 ~~~a~~  350 (444)
T 2zan_A          345 VRDALM  350 (444)
T ss_dssp             HHHHHT
T ss_pred             HHHHHH
Confidence            655544

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.73  E-value=1.9e-17  Score=169.23  Aligned_cols=201  Identities=15%  Similarity=0.179  Sum_probs=141.0

Q ss_pred             CCCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCc-----cccceEEee
Q psy12150         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELN  103 (456)
Q Consensus        29 ~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-----~~~~~~e~n  103 (456)
                      .....+|.++|+|.++++++|++..++.+...+.+...++++|+||||||||++++++++.+....     ....++.++
T Consensus       164 ~~~~~~l~~~~r~~~ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~  243 (468)
T 3pxg_A          164 DSLARDLTAIAKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLD  243 (468)
T ss_dssp             HSSCCBHHHHTTSSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-
T ss_pred             HHHHHHHHHHHhcCCCCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEee
Confidence            456789999999999999999999999999999887777899999999999999999999985422     123566666


Q ss_pred             CCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcc-----
Q psy12150        104 ASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS-----  178 (456)
Q Consensus       104 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~-----  178 (456)
                      ++. ...+.....+..........         ...++|||    ...+.++.|++.|+..  .+++|.++|...     
T Consensus       244 ~~~-~~~g~~e~~~~~~~~~~~~~---------~~~iLfiD----~~~~a~~~L~~~L~~g--~v~vI~at~~~e~~~~~  307 (468)
T 3pxg_A          244 MGT-KYRGEFEDRLKKVMDEIRQA---------GNIILFID----AAIDASNILKPSLARG--ELQCIGATTLDEYRKYI  307 (468)
T ss_dssp             ----------CTTHHHHHHHHHTC---------CCCEEEEC----C--------CCCTTSS--SCEEEEECCTTTTHHHH
T ss_pred             CCc-cccchHHHHHHHHHHHHHhc---------CCeEEEEe----CchhHHHHHHHhhcCC--CEEEEecCCHHHHHHHh
Confidence            651 11111111222222111111         12399999    3445667777777643  467777777554     


Q ss_pred             cccccccCCceEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCCC------HHHHHHHHHHHHHh
Q psy12150        179 CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGGD------MRRAITCLQSCARL  245 (456)
Q Consensus       179 kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~----~~~~i~~~~l~~L~~~s~gd------lr~~~~~L~~~~~~  245 (456)
                      .+.+++.+||..+.|.+|+.+++..+++..+..    .++.++++++..++..+.+.      ++.++..++.++..
T Consensus       308 ~~~~al~~Rf~~i~v~~p~~e~~~~iL~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~ai~ll~~a~~~  384 (468)
T 3pxg_A          308 EKDAALERRFQPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGSK  384 (468)
T ss_dssp             TTCSHHHHSEEEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHHH
T ss_pred             hcCHHHHHhCccceeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCCcHHHHHHHHHHHH
Confidence            578899999999999999999999999988766    78899999999999877543      45788888776653

>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=99.73  E-value=4.9e-17  Score=153.89  Aligned_cols=212  Identities=16%  Similarity=0.168  Sum_probs=139.1

Q ss_pred             CcccccccHHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHH
Q psy12150         43 TIDDVIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF  120 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~~--~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~  120 (456)
                      +|++++|++..+..+.+.+..  ....+++|+||||||||++++++++.....  ...++.++++... ...+...+...
T Consensus         4 ~f~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~~~--~~~~~~v~~~~~~-~~~~~~~l~g~   80 (265)
T 2bjv_A            4 YKDNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSRW--QGPFISLNCAALN-ENLLDSELFGH   80 (265)
T ss_dssp             ------CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTSTTT--TSCEEEEEGGGSC-HHHHHHHHHCC
T ss_pred             ccccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcCcc--CCCeEEEecCCCC-hhHHHHHhcCC
Confidence            688999999888877766643  223459999999999999999999986533  2368888887642 22222211100


Q ss_pred             HHhhccCCC--CCCC-CCCCcEEEEEcCCCCccHHHHHHHHHHHHhc-----------cCcceEEEEecCc-------cc
Q psy12150        121 AQQTASGFN--QDGK-PCPPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRFCLICNYV-------SC  179 (456)
Q Consensus       121 ~~~~~~~~~--~~~~-~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~-----------~~~~~lIl~~~~~-------~k  179 (456)
                      ....+.+..  ..+. ..+...+|||||++.+..+.++.|++++++.           ...+.+|+++|..       ..
T Consensus        81 ~~~~~~g~~~~~~~~l~~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~~~~~~~~~~~  160 (265)
T 2bjv_A           81 EAGAFTGAQKRHPGRFERADGGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVNEGT  160 (265)
T ss_dssp             C---------CCCCHHHHTTTSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESSCHHHHHHHTS
T ss_pred             cccccccccccccchhhhcCCcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCcCHHHHHHcCC
Confidence            000000000  0000 0013349999999999999999999999864           2457788888863       23


Q ss_pred             ccccccCCce--EEEecCCCH--HHHHHHHH----HHHHHcCC----CCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhh
Q psy12150        180 IIQPLTSRCS--KFRFKPLAE--NTMLTRLQ----YICEQESV----MCDFKALETLVETS-GGDMRRAITCLQSCARLK  246 (456)
Q Consensus       180 l~~~l~~r~~--~i~f~~~~~--~el~~~l~----~~~~~~~~----~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~  246 (456)
                      +.+++.+|+.  .++++++..  +++..++.    ..+.+.+.    .+++++++.|.... +||+|.+.+.++.++..+
T Consensus       161 ~~~~L~~Rl~~~~i~lp~L~~R~~di~~l~~~~l~~~~~~~~~~~~~~~~~~a~~~L~~~~~~gn~reL~~~l~~~~~~~  240 (265)
T 2bjv_A          161 FRADLLDALAFDVVQLPPLRERESDIMLMAEYFAIQMCREIKLPLFPGFTERARETLLNYRWPGNIRELKNVVERSVYRH  240 (265)
T ss_dssp             SCHHHHHHHCSEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCSSCCCBCHHHHHHHHHSCCTTHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHhhcCcEEeCCChhhhhHHHHHHHHHHHHHHHHHhCCCcccCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHhC
Confidence            5577888875  577888875  56665544    44444554    68999999998775 999999999999998877


Q ss_pred             CCCCCCHHHHH
Q psy12150        247 GGEGIVNEDVL  257 (456)
Q Consensus       247 ~~~~It~~~v~  257 (456)
                      .++.|+.+++.
T Consensus       241 ~~~~i~~~~l~  251 (265)
T 2bjv_A          241 GTSDYPLDDII  251 (265)
T ss_dssp             CCSSSCBCCCC
T ss_pred             CCCcCcHHHcc
Confidence            77778877653

>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=99.72  E-value=5.7e-17  Score=159.49  Aligned_cols=222  Identities=13%  Similarity=0.082  Sum_probs=144.2

Q ss_pred             ccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC------Cccc---------------
Q psy12150         38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG------DMYR---------------   96 (456)
Q Consensus        38 ky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~------~~~~---------------   96 (456)
                      .-+|.+|++++|++..+..+...+......+++|+||||||||++++++++.+..      ..+.               
T Consensus        17 ~~~~~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (350)
T 1g8p_A           17 TRPVFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLS   96 (350)
T ss_dssp             -CCCCCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSC
T ss_pred             CCCCCCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCccccccccccccccccccccchhhhhc
Confidence            3357789999999998877666554444456999999999999999999998753      1110               


Q ss_pred             -------cceEEeeCCCCcChHHHHHH--HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc---
Q psy12150         97 -------ERILELNASDDRGIQVIRDK--VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE---  164 (456)
Q Consensus        97 -------~~~~e~n~~~~~~~~~i~~~--l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~---  164 (456)
                             ..++.+....  ....+...  +..................+...+|||||++.+..+.++.|++.+++.   
T Consensus        97 ~~~~~~~~~~~~~~~~~--~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~~~~~~~Ll~~le~~~~~  174 (350)
T 1g8p_A           97 TNVIRKPTPVVDLPLGV--SEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENV  174 (350)
T ss_dssp             CCEEEECCCEEEECTTC--CHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEE
T ss_pred             cccccCCCcccccCCCc--chhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCCHHHHHHHHHHHhcCceE
Confidence                   0111111111  11111100  000000100000000000012459999999999999999999999863   


Q ss_pred             ----------cCcceEEEEecCc-ccccccccCCceE-EEecCCC-HHHHHHHHHHH-----------------------
Q psy12150        165 ----------TKSTRFCLICNYV-SCIIQPLTSRCSK-FRFKPLA-ENTMLTRLQYI-----------------------  208 (456)
Q Consensus       165 ----------~~~~~lIl~~~~~-~kl~~~l~~r~~~-i~f~~~~-~~el~~~l~~~-----------------------  208 (456)
                                +..+++|.++|.. ..+.++|.+|+.. +++.+++ .++..+++..+                       
T Consensus       175 ~~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~R~~~~~~l~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (350)
T 1g8p_A          175 VERDGLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRN  254 (350)
T ss_dssp             ECCTTCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHH
T ss_pred             EEecceEEeeCCceEEEEEeCCCCCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHHHhcccCchhhccccccchHHHHH
Confidence                      2356677777753 3788999999975 9999995 44444555442                       


Q ss_pred             ------HHHcCCCCCHHHHHHHHHHcCC----CHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        209 ------CEQESVMCDFKALETLVETSGG----DMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       209 ------~~~~~~~i~~~~l~~L~~~s~g----dlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                            ....++.+++++++.|+..+.+    ++|.+.+.++.+..++   +...|+.++|.+++.
T Consensus       255 ~i~~~~~~~~~~~ls~~~~~~l~~~~~~~~~~~~R~~~~ll~~a~~~A~~~~~~~v~~~~v~~a~~  320 (350)
T 1g8p_A          255 QILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARALAALEGATAVGRDHLKRVAT  320 (350)
T ss_dssp             HHHHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence                  2234568999999999988765    8999999998876665   445799999987664

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.71  E-value=6.1e-17  Score=156.68  Aligned_cols=187  Identities=16%  Similarity=0.239  Sum_probs=140.4

Q ss_pred             ccccccHHHHHHHHHHHhcCC--------CC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHH
Q psy12150         45 DDVIEQQEVVSVLKKCLSGAD--------LP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~~~--------~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~  115 (456)
                      ++++|++.+++.+...+..+.        +. +++|+||||||||++++++++.+.....  .++.++++..........
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~--~~~~~~~~~~~~~~~~~~   94 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEE--AMIRIDMTEYMEKHAVSR   94 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGG--GEEEEEGGGCCSTTHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCc--ceEEeecccccccccHHH
Confidence            367899999998888876542        22 4999999999999999999999865432  567777765433221111


Q ss_pred             HH---------------HHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------Ccce
Q psy12150        116 KV---------------KTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTR  169 (456)
Q Consensus       116 ~l---------------~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~  169 (456)
                      .+               ......            .++.++||||++.+....++.|++.+++..           .+++
T Consensus        95 l~g~~~~~~~~~~~~~~~~~~~~------------~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i  162 (311)
T 4fcw_A           95 LIGAPPGYVGYEEGGQLTEAVRR------------RPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTV  162 (311)
T ss_dssp             HHCCCTTSTTTTTCCHHHHHHHH------------CSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEECTTEE
T ss_pred             hcCCCCccccccccchHHHHHHh------------CCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEECCCcE
Confidence            11               111111            134599999999999999999999998754           3566


Q ss_pred             EEEEecC--------------------------cccccccccCCc-eEEEecCCCHHHHHHHHHHHHHHc---------C
Q psy12150        170 FCLICNY--------------------------VSCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQE---------S  213 (456)
Q Consensus       170 lIl~~~~--------------------------~~kl~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~~---------~  213 (456)
                      +|+++|.                          ...+.++|.+|+ ..+.|.|++.+++..++...+.+.         .
T Consensus       163 iI~ttn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~R~~~~~~~~p~~~~~~~~i~~~~l~~~~~~~~~~~~~  242 (311)
T 4fcw_A          163 IIMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQMSYLRARLAEKRIS  242 (311)
T ss_dssp             EEEEESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHTHHHHHHHHTTTCE
T ss_pred             EEEecccCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHhcCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHhCCcE
Confidence            8888887                          345677888999 589999999999999988876542         3


Q ss_pred             CCCCHHHHHHHHHHc---CCCHHHHHHHHHHHHHh
Q psy12150        214 VMCDFKALETLVETS---GGDMRRAITCLQSCARL  245 (456)
Q Consensus       214 ~~i~~~~l~~L~~~s---~gdlr~~~~~L~~~~~~  245 (456)
                      ..+++++++.|+..+   +|++|.+.+.++.++..
T Consensus       243 ~~~~~~~~~~l~~~~~~~~gn~R~L~~~i~~~~~~  277 (311)
T 4fcw_A          243 LELTEAAKDFLAERGYDPVFGARPLRRVIQRELET  277 (311)
T ss_dssp             EEECHHHHHHHHHHSCBTTTBTTTHHHHHHHHTHH
T ss_pred             EEeCHHHHHHHHHhCCCccCCchhHHHHHHHHHHH
Confidence            568999999999965   59999999999887653

>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=99.71  E-value=5.9e-16  Score=157.12  Aligned_cols=206  Identities=22%  Similarity=0.222  Sum_probs=143.9

Q ss_pred             CCCCcccccccHHHHHHHHHHHhc-----------CCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         40 RPKTIDDVIEQQEVVSVLKKCLSG-----------ADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        40 ~P~~~~~ivg~~~~~~~l~~~l~~-----------~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      .+.+|++++|.+..+..+++.+..           ...+ +++|+||||||||+++++++.....     +++.+++++.
T Consensus        11 ~~~~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~-----~f~~is~~~~   85 (476)
T 2ce7_A           11 KRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANV-----PFFHISGSDF   85 (476)
T ss_dssp             CCCCGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTC-----CEEEEEGGGT
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCC-----CeeeCCHHHH
Confidence            345899999999998888776531           2233 4999999999999999999998743     5667776653


Q ss_pred             cC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--------------HHHHHHHHHHHh--ccCcce
Q psy12150        108 RG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEK--ETKSTR  169 (456)
Q Consensus       108 ~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--------------~~~~~Ll~~le~--~~~~~~  169 (456)
                      ..  ...-...+..........         ...+|||||+|.+..              ..++.|+..++.  ....++
T Consensus        86 ~~~~~g~~~~~~r~lf~~A~~~---------~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~vi  156 (476)
T 2ce7_A           86 VELFVGVGAARVRDLFAQAKAH---------APCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGII  156 (476)
T ss_dssp             TTCCTTHHHHHHHHHHHHHHHT---------CSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEE
T ss_pred             HHHHhcccHHHHHHHHHHHHhc---------CCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEE
Confidence            21  111112222222222111         223999999998843              234566666653  234577


Q ss_pred             EEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCCCH-HHHHHHHHHHHH
Q psy12150        170 FCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGGDM-RRAITCLQSCAR  244 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~-~l~~L~~~s~gdl-r~~~~~L~~~~~  244 (456)
                      +|.++|.+..+.+++.+  |+. .+.+++|+.++..++++..++...  +.++ .+..++..++|+. +.+.+.++.++.
T Consensus       157 VIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~--l~~~v~l~~la~~t~G~sgadL~~lv~~Aal  234 (476)
T 2ce7_A          157 VMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKP--LAEDVNLEIIAKRTPGFVGADLENLVNEAAL  234 (476)
T ss_dssp             EEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSC--BCTTCCHHHHHHTCTTCCHHHHHHHHHHHHH
T ss_pred             EEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCC--CcchhhHHHHHHhcCCCcHHHHHHHHHHHHH
Confidence            88888888888888876  655 889999999999999988876543  3333 3778999999987 788888888766


Q ss_pred             hh---CCCCCCHHHHHHHhC
Q psy12150        245 LK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       245 ~~---~~~~It~~~v~~~~~  261 (456)
                      .+   +...|+.+++..++.
T Consensus       235 ~A~~~~~~~I~~~dl~~al~  254 (476)
T 2ce7_A          235 LAAREGRDKITMKDFEEAID  254 (476)
T ss_dssp             HHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHcCCCeecHHHHHHHHH
Confidence            65   356899999987764

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.69  E-value=5.6e-16  Score=149.47  Aligned_cols=210  Identities=15%  Similarity=0.153  Sum_probs=143.2

Q ss_pred             ccccccHHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHH
Q psy12150         45 DDVIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQ  122 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~--~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~  122 (456)
                      ++++|++..+..+.+.+..  ....+++|+||||||||++|+++++.....  ..+++.+|+..... ..+...+.....
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~--~~~~v~v~~~~~~~-~l~~~~lfg~~~   78 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSARS--DRPLVTLNCAALNE-SLLESELFGHEK   78 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSSCS--SSCCCEEECSSCCH-HHHHHHHTCCCS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCccc--CCCeEEEeCCCCCh-HHHHHHhcCccc
Confidence            3688998888888777754  233459999999999999999999975432  33678888876422 111111100000


Q ss_pred             hhccCCCCCCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------ccc
Q psy12150        123 QTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCI  180 (456)
Q Consensus       123 ~~~~~~~~~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~kl  180 (456)
                      ..+.+ .......    ++..+|||||++.++.+.+..|++.+++..           ..+.+|+++|..       ..+
T Consensus        79 g~~tg-~~~~~~g~~~~a~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~~l~~~v~~g~f  157 (304)
T 1ojl_A           79 GAFTG-ADKRREGRFVEADGGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAEEVSAGRF  157 (304)
T ss_dssp             SCCC----CCCCCHHHHHTTSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESSCHHHHHHHTSS
T ss_pred             cccCc-hhhhhcCHHHhcCCCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCccHHHHHHhCCc
Confidence            00000 0000000    123499999999999999999999998753           357788888864       234


Q ss_pred             cccccCCce--EEEecCCC--HHHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCC
Q psy12150        181 IQPLTSRCS--KFRFKPLA--ENTMLTRLQYICE----QES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGG  248 (456)
Q Consensus       181 ~~~l~~r~~--~i~f~~~~--~~el~~~l~~~~~----~~~---~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~~~  248 (456)
                      .+.|..|+.  .++++|+.  .+++..++...++    +.+   ..+++++++.|..++ +||+|++.+.++.++..+.+
T Consensus       158 r~~L~~Rl~~~~i~lPpL~eR~edi~~l~~~~l~~~~~~~~~~~~~~s~~a~~~L~~~~wpGnvReL~~~l~~~~~~~~~  237 (304)
T 1ojl_A          158 RQDLYYRLNVVAIEMPSLRQRREDIPLLADHFLRRFAERNRKVVKGFTPQAMDLLIHYDWPGNIRELENAIERAVVLLTG  237 (304)
T ss_dssp             CHHHHHHHSSEEEECCCSGGGGGGHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHHCCCSSHHHHHHHHHHHHHHHCCS
T ss_pred             HHHHHhhcCeeEEeccCHHHhHhhHHHHHHHHHHHHHHHhccCccCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHhCCC
Confidence            456777764  57788887  4666665554433    333   568999999999987 99999999999999888777


Q ss_pred             CCCCHHHHHH
Q psy12150        249 EGIVNEDVLE  258 (456)
Q Consensus       249 ~~It~~~v~~  258 (456)
                      ..|+.+++..
T Consensus       238 ~~i~~~~l~~  247 (304)
T 1ojl_A          238 EYISERELPL  247 (304)
T ss_dssp             SSBCGGGSCG
T ss_pred             CcccHHhhhh
Confidence            7888887754

>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=99.69  E-value=7.4e-16  Score=148.55  Aligned_cols=188  Identities=18%  Similarity=0.180  Sum_probs=128.5

Q ss_pred             ccCCCCcccccccHHHHHHHHHHHhc------------CCC-CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC
Q psy12150         38 KYRPKTIDDVIEQQEVVSVLKKCLSG------------ADL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        38 ky~P~~~~~ivg~~~~~~~l~~~l~~------------~~~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      ++.+.+|++++|.+.+++.|++++..            ... .+++||||||||||++++++++.+..     .++.+++
T Consensus         8 ~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~-----~~i~v~~   82 (301)
T 3cf0_A            8 EVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQA-----NFISIKG   82 (301)
T ss_dssp             ECCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTC-----EEEEECH
T ss_pred             cCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCC-----CEEEEEh
Confidence            44567899999999999999888753            122 34999999999999999999998743     5666665


Q ss_pred             CCCc------ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHHHHHHHhc
Q psy12150        105 SDDR------GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEKE  164 (456)
Q Consensus       105 ~~~~------~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~Ll~~le~~  164 (456)
                      .+..      ....+...+....    ..         ...+|||||+|.+...              .+..|+..++..
T Consensus        83 ~~l~~~~~g~~~~~~~~~f~~a~----~~---------~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~  149 (301)
T 3cf0_A           83 PELLTMWFGESEANVREIFDKAR----QA---------APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGM  149 (301)
T ss_dssp             HHHHHHHHTTCTTHHHHHHHHHH----HT---------CSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSS
T ss_pred             HHHHhhhcCchHHHHHHHHHHHH----hc---------CCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcc
Confidence            4311      0111222222211    11         2239999999988654              256778878742


Q ss_pred             --cCcceEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHH
Q psy12150        165 --TKSTRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITC  238 (456)
Q Consensus       165 --~~~~~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~  238 (456)
                        ...+++|.++|.+..+.+++.+  |+. .+.|++|+.++..++++..+++.+.. .+..++.++..+.| .-+.+.+.
T Consensus       150 ~~~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~-~~~~~~~la~~~~g~sg~dl~~l  228 (301)
T 3cf0_A          150 STKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEI  228 (301)
T ss_dssp             CTTSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-SSCCHHHHHHTCSSCCHHHHHHH
T ss_pred             cCCCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCC-ccchHHHHHHHcCCCCHHHHHHH
Confidence              3467888888988889898887  774 89999999999999999998876543 22234566666654 33445555


Q ss_pred             HHHHHH
Q psy12150        239 LQSCAR  244 (456)
Q Consensus       239 L~~~~~  244 (456)
                      ++.++.
T Consensus       229 ~~~a~~  234 (301)
T 3cf0_A          229 CQRACK  234 (301)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            554443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.67  E-value=1.8e-16  Score=141.40  Aligned_cols=164  Identities=17%  Similarity=0.193  Sum_probs=116.7

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCc-----cccceEEeeCCC
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNASD  106 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-----~~~~~~e~n~~~  106 (456)
                      ..+|.++|+|.+|++++|++..++.+.+++..+...+++|+||+|+|||++++++++.+....     ....++.+++..
T Consensus         9 ~~~l~~~~~~~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (195)
T 1jbk_A            9 TIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA   88 (195)
T ss_dssp             EEEHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH
T ss_pred             hHHHHHHHhhccccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHH
Confidence            468999999999999999999999999999887767799999999999999999999874311     122455555432


Q ss_pred             C----cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------HHHHHHHHHHhccCcceEEEEe
Q psy12150        107 D----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------AQAALRRTMEKETKSTRFCLIC  174 (456)
Q Consensus       107 ~----~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------~~~~Ll~~le~~~~~~~lIl~~  174 (456)
                      .    .........+..+.......        ....+|+|||++.+...        .++.|..+++..  .+.+|+++
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~~--~~~~i~~~  158 (195)
T 1jbk_A           89 LVAGAKYRGEFEERLKGVLNDLAKQ--------EGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--ELHCVGAT  158 (195)
T ss_dssp             HHTTTCSHHHHHHHHHHHHHHHHHS--------TTTEEEEEETGGGGTT------CCCCHHHHHHHHHTT--SCCEEEEE
T ss_pred             HhccCCccccHHHHHHHHHHHHhhc--------CCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhccC--CeEEEEeC
Confidence            1    12222333333333221111        13349999999999632        255666666543  46677777


Q ss_pred             cCcc-----cccccccCCceEEEecCCCHHHHHHHH
Q psy12150        175 NYVS-----CIIQPLTSRCSKFRFKPLAENTMLTRL  205 (456)
Q Consensus       175 ~~~~-----kl~~~l~~r~~~i~f~~~~~~el~~~l  205 (456)
                      +...     .+.+++.+|+..+.|.+|+.++..+++
T Consensus       159 ~~~~~~~~~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          159 TLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             CHHHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             CHHHHHHHHhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence            7543     567889999999999999999987764

>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=99.66  E-value=1.8e-15  Score=154.68  Aligned_cols=219  Identities=16%  Similarity=0.128  Sum_probs=148.5

Q ss_pred             hccCCCCcccccccHHHHHHHHHHHhc-------------CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEee
Q psy12150         37 EKYRPKTIDDVIEQQEVVSVLKKCLSG-------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (456)
Q Consensus        37 eky~P~~~~~ivg~~~~~~~l~~~l~~-------------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n  103 (456)
                      +.+.+.+|++++|++..++.+++++..             ....++|||||||||||++++++++.+.     ..++.+|
T Consensus       196 ~~~~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~-----~~fv~vn  270 (489)
T 3hu3_A          196 ESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG-----AFFFLIN  270 (489)
T ss_dssp             HHHTCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCS-----SEEEEEE
T ss_pred             cccCCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhC-----CCEEEEE
Confidence            356677899999999999999888753             2233499999999999999999999863     3677787


Q ss_pred             CCCCc--ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHHHHHHHHHHhc--cCcc
Q psy12150        104 ASDDR--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQAALRRTMEKE--TKST  168 (456)
Q Consensus       104 ~~~~~--~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~~~Ll~~le~~--~~~~  168 (456)
                      +.+..  ..+.....+..........         ...+|||||+|.+..           ..+..|++.|+..  ...+
T Consensus       271 ~~~l~~~~~g~~~~~~~~~f~~A~~~---------~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v  341 (489)
T 3hu3_A          271 GPEIMSKLAGESESNLRKAFEEAEKN---------APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  341 (489)
T ss_dssp             HHHHHTSCTTHHHHHHHHHHHHHHHT---------CSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCE
T ss_pred             chHhhhhhcchhHHHHHHHHHHHHhc---------CCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCce
Confidence            65421  1122222233322222211         223999999976643           4577888888853  3467


Q ss_pred             eEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHHHH
Q psy12150        169 RFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGD-MRRAITCLQSCAR  244 (456)
Q Consensus       169 ~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gd-lr~~~~~L~~~~~  244 (456)
                      ++|.++|.+..+.+++.+  |+. .+.|..|+.++..++++.+++..+.. .+..+..++..+.|. .+.+.+.++.++.
T Consensus       342 ~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~-~~~~l~~la~~t~g~s~~dL~~L~~~A~~  420 (489)
T 3hu3_A          342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVGADLAALCSEAAL  420 (489)
T ss_dssp             EEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHH
T ss_pred             EEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCc-chhhHHHHHHHccCCcHHHHHHHHHHHHH
Confidence            788888888889999988  554 79999999999999999888755433 233467788888774 4445555555554


Q ss_pred             hh--C-CC-----------------CCCHHHHHHHhCCCCHHHHHH
Q psy12150        245 LK--G-GE-----------------GIVNEDVLEVTGVIPKPWIEK  270 (456)
Q Consensus       245 ~~--~-~~-----------------~It~~~v~~~~~~~~~~~i~~  270 (456)
                      .+  . ..                 .|+.+++..++....++.+.+
T Consensus       421 ~a~r~~~~~i~~~~~~~~~~~~~~~~vt~edf~~Al~~~~ps~~re  466 (489)
T 3hu3_A          421 QAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRE  466 (489)
T ss_dssp             HHHHTTTTTCCTTCSSCCHHHHHHCCBCHHHHHHHHTSHHHHHHHG
T ss_pred             HHHHhccccccccccccchhhcccCcCCHHHHHHHHHhCCchhhhc
Confidence            44  1 11                 356667766666655544433

>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=99.65  E-value=4.1e-16  Score=170.85  Aligned_cols=207  Identities=15%  Similarity=0.133  Sum_probs=143.2

Q ss_pred             CCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCc-----cccceEEeeC
Q psy12150         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNA  104 (456)
Q Consensus        30 ~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-----~~~~~~e~n~  104 (456)
                      ....+|.++|+|.+|++++|++..++.+.+.+..+..++++|+||||+|||++++.+++.+....     ....++.+++
T Consensus       155 ~~~~~l~~~~r~~~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~  234 (854)
T 1qvr_A          155 QYGIDLTRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQM  234 (854)
T ss_dssp             HHEEEHHHHHHTTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC
T ss_pred             HHHHhHHHHHhcCCCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeeh
Confidence            34678999999999999999999999999999888777899999999999999999999874321     1335677776


Q ss_pred             CCCcC----hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCcc--------HHHHHHHHHHHHhccCcceEEE
Q psy12150        105 SDDRG----IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT--------HAAQAALRRTMEKETKSTRFCL  172 (456)
Q Consensus       105 ~~~~~----~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~--------~~~~~~Ll~~le~~~~~~~lIl  172 (456)
                      +....    .......+..........        ....+|||||++.+.        .+..+.|..+++..  .+.+|.
T Consensus       235 ~~l~~g~~~~g~~~~~l~~~~~~~~~~--------~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~~--~i~~I~  304 (854)
T 1qvr_A          235 GSLLAGAKYRGEFEERLKAVIQEVVQS--------QGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--ELRLIG  304 (854)
T ss_dssp             -----------CHHHHHHHHHHHHHTT--------CSSEEEEECCC-------------------HHHHHTT--CCCEEE
T ss_pred             HHhhccCccchHHHHHHHHHHHHHHhc--------CCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhCC--CeEEEE
Confidence            55321    112223333332222111        123499999999997        23445677777653  355666


Q ss_pred             EecCc----ccccccccCCceEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHH
Q psy12150        173 ICNYV----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGG------DMRRAITC  238 (456)
Q Consensus       173 ~~~~~----~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~----~~~~i~~~~l~~L~~~s~g------dlr~~~~~  238 (456)
                      +++..    ..+.+++.+|+..+.|++|+.++...+++..+..    .++.++++++..++..+.|      -+..++..
T Consensus       305 at~~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~~~~~~~~~~~i~~~al~~~~~ls~r~i~~~~lp~kai~l  384 (854)
T 1qvr_A          305 ATTLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDL  384 (854)
T ss_dssp             EECHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHH
T ss_pred             ecCchHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhhhhhhhhcCCCCCHHHHHHHHHHHhhhcccccChHHHHHH
Confidence            66643    2467899999999999999999999999877653    5788999999999988743      37788888


Q ss_pred             HHHHHHhh
Q psy12150        239 LQSCARLK  246 (456)
Q Consensus       239 L~~~~~~~  246 (456)
                      ++.++...
T Consensus       385 ldea~a~~  392 (854)
T 1qvr_A          385 IDEAAARL  392 (854)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88776654

>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=99.65  E-value=2.6e-15  Score=162.75  Aligned_cols=223  Identities=15%  Similarity=0.117  Sum_probs=157.4

Q ss_pred             CCCCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc-----ccceEEe
Q psy12150         28 TRNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----RERILEL  102 (456)
Q Consensus        28 ~~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~-----~~~~~e~  102 (456)
                      ......+|.++++|.+|++++|++..++.+.+.+......+++|+||||||||++++.+++.+.....     ...++.+
T Consensus       169 l~~~~~~l~~~~~~~~~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~  248 (758)
T 1r6b_X          169 LENFTTNLNQLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL  248 (758)
T ss_dssp             CCSSSCBHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEEC
T ss_pred             HHHHhHhHHHHHhcCCCCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEE
Confidence            35677899999999999999999999999999998877777999999999999999999998743221     2234444


Q ss_pred             eCCCCc----ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCcc---------HHHHHHHHHHHHhccCcce
Q psy12150        103 NASDDR----GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT---------HAAQAALRRTMEKETKSTR  169 (456)
Q Consensus       103 n~~~~~----~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~---------~~~~~~Ll~~le~~~~~~~  169 (456)
                      +.....    ..+...+.+..........         ...+|||||++.+.         .+..+.|..++++  ..+.
T Consensus       249 ~~~~l~~~~~~~g~~e~~l~~~~~~~~~~---------~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~--~~~~  317 (758)
T 1r6b_X          249 DIGSLLAGTKYRGDFEKRFKALLKQLEQD---------TNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIR  317 (758)
T ss_dssp             CCC---CCCCCSSCHHHHHHHHHHHHSSS---------SCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS--CCCE
T ss_pred             cHHHHhccccccchHHHHHHHHHHHHHhc---------CCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhC--CCeE
Confidence            433211    1122333333333322111         23499999999982         2334444455543  3456


Q ss_pred             EEEEecCc-----ccccccccCCceEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHH
Q psy12150        170 FCLICNYV-----SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGG------DMRR  234 (456)
Q Consensus       170 lIl~~~~~-----~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~----~~~~i~~~~l~~L~~~s~g------dlr~  234 (456)
                      +|.+++..     ....+++.+|+..+.|.+|+.++..+++...+..    .++.++++++..++..+.|      .+..
T Consensus       318 ~I~at~~~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~~~~~~~~~v~~~~~al~~~~~~s~~~i~~~~lp~~  397 (758)
T 1r6b_X          318 VIGSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDK  397 (758)
T ss_dssp             EEEEECHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHH
T ss_pred             EEEEeCchHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhcccccCchH
Confidence            66777642     2456789999999999999999999999887765    6788999999999987654      3456


Q ss_pred             HHHHHHHHHHhh-------CCCCCCHHHHHHHhC
Q psy12150        235 AITCLQSCARLK-------GGEGIVNEDVLEVTG  261 (456)
Q Consensus       235 ~~~~L~~~~~~~-------~~~~It~~~v~~~~~  261 (456)
                      ++..++.++...       ....|+.+++.+++.
T Consensus       398 ~i~lld~a~~~~~~~~~~~~~~~v~~~di~~~~~  431 (758)
T 1r6b_X          398 AIDVIDEAGARARLMPVSKRKKTVNVADIESVVA  431 (758)
T ss_dssp             HHHHHHHHHHHHHHSSSCCCCCSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccccCCccCHHHHHHHHH
Confidence            777776665432       245799999987753

>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=99.65  E-value=3.1e-17  Score=155.41  Aligned_cols=208  Identities=17%  Similarity=0.171  Sum_probs=139.0

Q ss_pred             ccCCCCcccccccHHHHHHHHHHHh-----------cCCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         38 KYRPKTIDDVIEQQEVVSVLKKCLS-----------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        38 ky~P~~~~~ivg~~~~~~~l~~~l~-----------~~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      ++.+.+|++++|++..++.+.+.+.           +...+ +++|+||||||||++++++++.+..     +++.++++
T Consensus         4 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~-----~~~~v~~~   78 (268)
T 2r62_A            4 EKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHV-----PFFSMGGS   78 (268)
T ss_dssp             CCCCCCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTC-----CCCCCCSC
T ss_pred             cCCCCCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCC-----CEEEechH
Confidence            4567789999999999888887764           22333 4999999999999999999998754     33444444


Q ss_pred             CCcC------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH---------------HHHHHHHHHhc
Q psy12150        106 DDRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA---------------QAALRRTMEKE  164 (456)
Q Consensus       106 ~~~~------~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~---------------~~~Ll~~le~~  164 (456)
                      +...      ...+...+......             ...+|||||+|.+....               +..|+..++..
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~a~~~-------------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~  145 (268)
T 2r62_A           79 SFIEMFVGLGASRVRDLFETAKKQ-------------APSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGF  145 (268)
T ss_dssp             TTTTSCSSSCSSSSSTTHHHHHHS-------------CSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCS
T ss_pred             HHHHhhcchHHHHHHHHHHHHHhc-------------CCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCc
Confidence            3110      01111111111111             12399999999986532               33455555543


Q ss_pred             c---CcceEEEEecCcccccccccC--Cc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHH
Q psy12150        165 T---KSTRFCLICNYVSCIIQPLTS--RC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAIT  237 (456)
Q Consensus       165 ~---~~~~lIl~~~~~~kl~~~l~~--r~-~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~  237 (456)
                      .   ..+++|.++|.+..+.+++.+  |+ ..+.|++|+.++..++++..++..+.. ++..++.++..+.| ..|.+.+
T Consensus       146 ~~~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~~g~dl~~  224 (268)
T 2r62_A          146 GSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLA-NDVNLQEVAKLTAGLAGADLAN  224 (268)
T ss_dssp             SCSCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCC-SSCCTTTTTSSSCSSCHHHHHH
T ss_pred             ccCCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCC-CccCHHHHHHHcCCCCHHHHHH
Confidence            2   236677777878778888887  55 378999999999999999887654322 23335667777766 4567777


Q ss_pred             HHHHHHHhh---CCCCCCHHHHHHHhCCCC
Q psy12150        238 CLQSCARLK---GGEGIVNEDVLEVTGVIP  264 (456)
Q Consensus       238 ~L~~~~~~~---~~~~It~~~v~~~~~~~~  264 (456)
                      .++.++..+   ++..|+.+++.+++....
T Consensus       225 l~~~a~~~a~~~~~~~i~~~~~~~a~~~~~  254 (268)
T 2r62_A          225 IINEAALLAGRNNQKEVRQQHLKEAVERGI  254 (268)
T ss_dssp             HHHHHHHTTSSSCCCSCCHHHHHTSCTTCC
T ss_pred             HHHHHHHHHHHhccCCcCHHHHHHHHHHHh
Confidence            787777665   356899999998876543

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.64  E-value=2.7e-15  Score=153.17  Aligned_cols=213  Identities=21%  Similarity=0.202  Sum_probs=146.2

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhc-----------CCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccce
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------ADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERI   99 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~-----------~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~   99 (456)
                      ...|.+. .+.+|++++|+++.+..+++.+..           ...+ +++|+||||||||+++++++..+.     ..+
T Consensus        19 ~~~~~~~-~~~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~-----~~~   92 (499)
T 2dhr_A           19 ARVLTEA-PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR-----VPF   92 (499)
T ss_dssp             CEEECSC-CCCCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT-----CCE
T ss_pred             ceeeccC-CCCCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC-----CCE
Confidence            3455555 677999999999998887766531           1223 499999999999999999999864     357


Q ss_pred             EEeeCCCCcC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--------------HHHHHHHHHHHh
Q psy12150        100 LELNASDDRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEK  163 (456)
Q Consensus       100 ~e~n~~~~~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--------------~~~~~Ll~~le~  163 (456)
                      +.+++++...  .......+....+...     ...|+    ++||||+|.+..              ...+.|+..|+.
T Consensus        93 i~i~g~~~~~~~~g~~~~~v~~lfq~a~-----~~~p~----il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg  163 (499)
T 2dhr_A           93 ITASGSDFVEMFVGVGAARVRDLFETAK-----RHAPC----IVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDG  163 (499)
T ss_dssp             EEEEGGGGTSSCTTHHHHHHHHHTTTSS-----SSSSC----EEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGG
T ss_pred             EEEehhHHHHhhhhhHHHHHHHHHHHHH-----hcCCC----EEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcc
Confidence            7777765321  1222223333222211     11223    999999987742              123445555553


Q ss_pred             cc--CcceEEEEecCcccccccccCCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCCH-HHHH
Q psy12150        164 ET--KSTRFCLICNYVSCIIQPLTSRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKA-LETLVETSGGDM-RRAI  236 (456)
Q Consensus       164 ~~--~~~~lIl~~~~~~kl~~~l~~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~-l~~L~~~s~gdl-r~~~  236 (456)
                      ..  ..++++.++|.+..+.+++.+++.   .+.++.|+.++..++++..++  +..+++++ +..++..+.|+. +.+.
T Consensus       164 ~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~--~~~l~~dv~l~~lA~~t~G~~gadL~  241 (499)
T 2dhr_A          164 FEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLE  241 (499)
T ss_dssp             CCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTS--SSCCCCSSTTHHHHTTSCSCCHHHHH
T ss_pred             cccCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHh--cCCCChHHHHHHHHHhcCCCCHHHHH
Confidence            32  345566667777778888888543   899999999999999887654  44555443 788999999988 8898


Q ss_pred             HHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        237 TCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       237 ~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      +.++.++.++   +...|+.+++.+++.
T Consensus       242 ~lv~~Aa~~A~~~~~~~It~~dl~~al~  269 (499)
T 2dhr_A          242 NLLNEAALLAAREGRRKITMKDLEEAAD  269 (499)
T ss_dssp             HHHHHHHHHHTTTCCSSCCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCccCHHHHHHHHH
Confidence            9998887766   245799999887664

>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=99.63  E-value=1.7e-14  Score=135.46  Aligned_cols=209  Identities=19%  Similarity=0.150  Sum_probs=137.6

Q ss_pred             hhccCCCCcccccccHHHHHHHHHHHhc-----------CCC-CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEee
Q psy12150         36 VEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------ADL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (456)
Q Consensus        36 ~eky~P~~~~~ivg~~~~~~~l~~~l~~-----------~~~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n  103 (456)
                      ...+.+.+|++++|.+..+..+++....           ... ++++|+||+|+|||+++++++..+..     .++.++
T Consensus         7 ~~~~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~-----~~i~~~   81 (254)
T 1ixz_A            7 LTEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV-----PFITAS   81 (254)
T ss_dssp             -CCCCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTC-----CEEEEE
T ss_pred             ccCCCCCCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCC-----CEEEee
Confidence            3455567899999999888777655421           122 34999999999999999999998642     455555


Q ss_pred             CCCCc--ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--------------HHHHHHHHHHHhcc--
Q psy12150        104 ASDDR--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEKET--  165 (456)
Q Consensus       104 ~~~~~--~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--------------~~~~~Ll~~le~~~--  165 (456)
                      +.+..  ........+....+.....         ...++++||++.+..              ...+.++..++...  
T Consensus        82 ~~~~~~~~~~~~~~~i~~~~~~~~~~---------~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~  152 (254)
T 1ixz_A           82 GSDFVEMFVGVGAARVRDLFETAKRH---------APCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD  152 (254)
T ss_dssp             HHHHHHSCTTHHHHHHHHHHHHHTTS---------SSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTT
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHhc---------CCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCC
Confidence            43210  0111122233333332111         124999999987631              12334555555332  


Q ss_pred             CcceEEEEecCcccccccccCC--ce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCCH-HHHHHHHH
Q psy12150        166 KSTRFCLICNYVSCIIQPLTSR--CS-KFRFKPLAENTMLTRLQYICEQESVMCDFKA-LETLVETSGGDM-RRAITCLQ  240 (456)
Q Consensus       166 ~~~~lIl~~~~~~kl~~~l~~r--~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~-l~~L~~~s~gdl-r~~~~~L~  240 (456)
                      ...+++.+++.+..+.+++.++  +. .+.++.|+.++..++++..++  +..++++. +..++..+.|+. +.+.+.++
T Consensus       153 ~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~--~~~~~~~~~~~~la~~~~G~~~~dl~~~~~  230 (254)
T 1ixz_A          153 TAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLENLLN  230 (254)
T ss_dssp             CCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHT--TSCBCTTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHc--CCCCCcccCHHHHHHHcCCCCHHHHHHHHH
Confidence            2345556667788888888874  43 789999999999999987764  34455443 788999999876 78888888


Q ss_pred             HHHHhh---CCCCCCHHHHHHHh
Q psy12150        241 SCARLK---GGEGIVNEDVLEVT  260 (456)
Q Consensus       241 ~~~~~~---~~~~It~~~v~~~~  260 (456)
                      .++.++   +...|+.+++.+++
T Consensus       231 ~a~~~a~~~~~~~I~~~dl~~a~  253 (254)
T 1ixz_A          231 EAALLAAREGRRKITMKDLEEAA  253 (254)
T ss_dssp             HHHHHHHHTTCSSBCHHHHHHHT
T ss_pred             HHHHHHHHhcCCCcCHHHHHHHh
Confidence            776655   34679999998765

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.62  E-value=1.4e-15  Score=164.65  Aligned_cols=201  Identities=15%  Similarity=0.176  Sum_probs=140.0

Q ss_pred             CCCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCc-----cccceEEee
Q psy12150         29 RNKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELN  103 (456)
Q Consensus        29 ~~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-----~~~~~~e~n  103 (456)
                      .....+|.++++|..+++++|++..++.+...+.....+++||+||||||||++++++++.+....     ....++.++
T Consensus       164 ~~~~~~l~~~~~~~~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~  243 (758)
T 3pxi_A          164 DSLARDLTAIAKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLD  243 (758)
T ss_dssp             HSSCCBHHHHTTSSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-
T ss_pred             HHHHHHHHHHHhhCCCCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEec
Confidence            456789999999999999999999999999999988778899999999999999999999984422     123455555


Q ss_pred             CCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcc-----
Q psy12150        104 ASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS-----  178 (456)
Q Consensus       104 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~-----  178 (456)
                      +.. ...+.....+..........         ...+||||    ...+.++.|+..+++  ..+++|.++|...     
T Consensus       244 ~g~-~~~G~~e~~l~~~~~~~~~~---------~~~iLfiD----~~~~~~~~L~~~l~~--~~v~~I~at~~~~~~~~~  307 (758)
T 3pxi_A          244 MGT-KYRGEFEDRLKKVMDEIRQA---------GNIILFID----AAIDASNILKPSLAR--GELQCIGATTLDEYRKYI  307 (758)
T ss_dssp             ----------CTTHHHHHHHHHTC---------CCCEEEEC----C--------CCCTTS--SSCEEEEECCTTTTHHHH
T ss_pred             ccc-cccchHHHHHHHHHHHHHhc---------CCEEEEEc----CchhHHHHHHHHHhc--CCEEEEeCCChHHHHHHh
Confidence            511 11111111222222211111         22399999    334566777777774  3467777777654     


Q ss_pred             cccccccCCceEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHHHHHHh
Q psy12150        179 CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETSGG------DMRRAITCLQSCARL  245 (456)
Q Consensus       179 kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~----~~~~i~~~~l~~L~~~s~g------dlr~~~~~L~~~~~~  245 (456)
                      .+.+++.+||..+.|++|+.+++..+++..+..    .++.++++++..++..+.+      .++.++..++.++..
T Consensus       308 ~~d~al~rRf~~i~v~~p~~~~~~~il~~~~~~~~~~~~~~i~~~al~~~~~~s~~~i~~~~~p~~ai~ll~~a~~~  384 (758)
T 3pxi_A          308 EKDAALERRFQPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGSK  384 (758)
T ss_dssp             TTCSHHHHSEEEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHHH
T ss_pred             hccHHHHhhCcEEEeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccCcCCcHHHHHHHHHHHH
Confidence            578999999999999999999999999977765    6788999999999887643      356788888776554

>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=99.62  E-value=2.2e-15  Score=156.56  Aligned_cols=205  Identities=17%  Similarity=0.207  Sum_probs=139.5

Q ss_pred             cccccccHHHHHHHHHHHh------cCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHH---
Q psy12150         44 IDDVIEQQEVVSVLKKCLS------GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIR---  114 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~------~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~---  114 (456)
                      .++++|.+.+...+...+.      ....++++|+||||||||+++++++..+..     .+..+++........+.   
T Consensus        80 ~~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~-----~~~~i~~~~~~~~~~~~g~~  154 (543)
T 3m6a_A           80 DEEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGR-----KFVRISLGGVRDESEIRGHR  154 (543)
T ss_dssp             HHHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTC-----EEEEECCCC-----------
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCC-----CeEEEEecccchhhhhhhHH
Confidence            4568999999888766542      122335999999999999999999998743     45555554422211111   


Q ss_pred             --------HHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH----HHHHHHHHHhcc---------------Cc
Q psy12150        115 --------DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA----QAALRRTMEKET---------------KS  167 (456)
Q Consensus       115 --------~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~----~~~Ll~~le~~~---------------~~  167 (456)
                              ..+........          ....++|+||++.+..+.    ++.|++.|+...               ..
T Consensus       155 ~~~ig~~~~~~~~~~~~a~----------~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~  224 (543)
T 3m6a_A          155 RTYVGAMPGRIIQGMKKAG----------KLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSK  224 (543)
T ss_dssp             ---------CHHHHHHTTC----------SSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSS
T ss_pred             HHHhccCchHHHHHHHHhh----------ccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccc
Confidence                    11111111110          123399999999998763    477888776422               45


Q ss_pred             ceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHH-----Hc-----CCCCCHHHHHHHHHHc--CCCHHHH
Q psy12150        168 TRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE-----QE-----SVMCDFKALETLVETS--GGDMRRA  235 (456)
Q Consensus       168 ~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~-----~~-----~~~i~~~~l~~L~~~s--~gdlr~~  235 (456)
                      +++|+++|....+.++|++|+..+.|++|+.++...++...+.     ..     ++.++++++..++...  +|++|.+
T Consensus       225 v~iI~ttN~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~~~~~~~~~vR~L  304 (543)
T 3m6a_A          225 VLFIATANNLATIPGPLRDRMEIINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDIIRYYTREAGVRSL  304 (543)
T ss_dssp             CEEEEECSSTTTSCHHHHHHEEEEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHHHHHCCCSSSHHH
T ss_pred             eEEEeccCccccCCHHHHhhcceeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHHHhCChhhchhHH
Confidence            6788888999999999999999999999999999998887652     22     4567999999988744  3799999


Q ss_pred             HHHHHHHHHhh---------CCCCCCHHHHHHHhCCC
Q psy12150        236 ITCLQSCARLK---------GGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       236 ~~~L~~~~~~~---------~~~~It~~~v~~~~~~~  263 (456)
                      .+.++.++..+         +...|+.+++.++++..
T Consensus       305 ~~~i~~~~~~aa~~~~~~~~~~~~It~~~l~~~Lg~~  341 (543)
T 3m6a_A          305 ERQLAAICRKAAKAIVAEERKRITVTEKNLQDFIGKR  341 (543)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSCCEECTTTTHHHHCSC
T ss_pred             HHHHHHHHHHHHHHHHhcCCcceecCHHHHHHHhCCc
Confidence            88887765543         12358888998888755

>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=99.60  E-value=1.1e-15  Score=163.17  Aligned_cols=187  Identities=19%  Similarity=0.234  Sum_probs=128.6

Q ss_pred             CCcccccccHHHHHHHHHHHh------------cCCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC-
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLS------------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD-  107 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~------------~~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~-  107 (456)
                      -+|+++.|.+..++.|++.+.            +..+| ++|||||||||||++|++++++++.     .++.+++++. 
T Consensus       201 v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~-----~~~~v~~~~l~  275 (806)
T 3cf2_A          201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-----FFFLINGPEIM  275 (806)
T ss_dssp             CCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTC-----EEEEEEHHHHH
T ss_pred             CChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCC-----eEEEEEhHHhh
Confidence            589999999999998888763            11233 3999999999999999999998743     5777776542 


Q ss_pred             -cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH-----------HHHHHHHHHHhc--cCcceEEEE
Q psy12150        108 -RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTMEKE--TKSTRFCLI  173 (456)
Q Consensus       108 -~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~-----------~~~~Ll~~le~~--~~~~~lIl~  173 (456)
                       ...+.....+......+...     .|+    ||||||+|.+.+.           ..+.|+..|+..  ...+++|.+
T Consensus       276 sk~~gese~~lr~lF~~A~~~-----~Ps----IIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaa  346 (806)
T 3cf2_A          276 SKLAGESESNLRKAFEEAEKN-----APA----IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAA  346 (806)
T ss_dssp             SSCTTHHHHHHHHHHHHHTTS-----CSE----EEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEE
T ss_pred             cccchHHHHHHHHHHHHHHHc-----CCe----EEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEe
Confidence             12233334444444443221     233    9999999998532           245566666543  235677888


Q ss_pred             ecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCH-HHHHHHHHHHH
Q psy12150        174 CNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDM-RRAITCLQSCA  243 (456)
Q Consensus       174 ~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdl-r~~~~~L~~~~  243 (456)
                      ||.++.+.+++++  |+. .++++.|+.++..++++..++..... ++..+..|+..+.|.. ..+.+.+..++
T Consensus       347 TN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~-~dvdl~~lA~~T~GfsgaDL~~Lv~eA~  419 (806)
T 3cf2_A          347 TNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVGADLAALCSEAA  419 (806)
T ss_dssp             CSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEEC-TTCCHHHHHHHCCSCCHHHHHHHHHHHH
T ss_pred             cCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCC-cccCHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            8999999999988  665 89999999999999998776543221 2334778899887743 33334444433

>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=99.60  E-value=6.8e-14  Score=140.43  Aligned_cols=223  Identities=19%  Similarity=0.243  Sum_probs=144.7

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHH-h----c--CCCCeEEE--ECCCCCcHHHHHHHHHHHhcCC----ccccce
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCL-S----G--ADLPHFLF--YGPPGTGKTSTMIAACHQLFGD----MYRERI   99 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l-~----~--~~~~~~Ll--~G~~G~GKT~~a~~l~~~l~~~----~~~~~~   99 (456)
                      .++...|.|   +.++|++..++.+..++ .    +  .....++|  +||+|+|||++++.+++.+...    .....+
T Consensus        13 ~~~~~~~~p---~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~   89 (412)
T 1w5s_A           13 RVFDENYIP---PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQ   89 (412)
T ss_dssp             GGGSTTCCC---SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEE
T ss_pred             hhcCCccCC---CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeE
Confidence            345556777   56899999998888887 4    2  23445899  9999999999999999886431    012356


Q ss_pred             EEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCC--------------CCCCcEEEEEcCCCCccH------HHHHHHHH
Q psy12150        100 LELNASDDRGIQVIRDKVKTFAQQTASGFNQDGK--------------PCPPFKIVILDEADSMTH------AAQAALRR  159 (456)
Q Consensus       100 ~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~--------------~~~~~~iviIDE~d~l~~------~~~~~Ll~  159 (456)
                      +.+++........+...+........   ...+.              ....+.+|||||++.+..      +....|.+
T Consensus        90 ~~~~~~~~~~~~~~~~~l~~~l~~~~---~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~  166 (412)
T 1w5s_A           90 AYVNAFNAPNLYTILSLIVRQTGYPI---QVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLR  166 (412)
T ss_dssp             EEEEGGGCCSHHHHHHHHHHHHTCCC---CCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCC---CCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHH
Confidence            77776433333222211111000000   00000              001344999999999853      55666677


Q ss_pred             HHHhcc-----CcceEEEEecCcc---ccc---ccccCCc-eEEEecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHH
Q psy12150        160 TMEKET-----KSTRFCLICNYVS---CII---QPLTSRC-SKFRFKPLAENTMLTRLQYICEQES--VMCDFKALETLV  225 (456)
Q Consensus       160 ~le~~~-----~~~~lIl~~~~~~---kl~---~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~~~--~~i~~~~l~~L~  225 (456)
                      .+.+.+     ..+.+|++++...   .+.   +.+.++. ..++|++++.+++.+++...+...+  ..+++++++.++
T Consensus       167 ~~~~~~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~  246 (412)
T 1w5s_A          167 VHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELIS  246 (412)
T ss_dssp             HHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHH
T ss_pred             HHHhcccCCCCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHH
Confidence            776543     4566777775432   222   3344443 2499999999999999998876543  358899999999


Q ss_pred             HHcC------CCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        226 ETSG------GDMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       226 ~~s~------gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      +.++      |++|.+.+.++.+...+   +...|+.+++..+..
T Consensus       247 ~~~~~~~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~  291 (412)
T 1w5s_A          247 DVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVS  291 (412)
T ss_dssp             HHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             HHHHHhccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            9999      99999999998765543   345688888776553

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.60  E-value=1.8e-15  Score=134.45  Aligned_cols=158  Identities=14%  Similarity=0.161  Sum_probs=109.8

Q ss_pred             CCCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCc-----cccceEEeeC
Q psy12150         30 NKPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNA  104 (456)
Q Consensus        30 ~~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-----~~~~~~e~n~  104 (456)
                      ....+|.++|+|.+|++++|++..+..+.+++..+...+++|+||+|+|||++++.+++.+....     ....++.+++
T Consensus         7 ~~~~~l~~~~~~~~~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (187)
T 2p65_A            7 KYSRDLTALARAGKLDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDL   86 (187)
T ss_dssp             TTEEEHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECH
T ss_pred             HHHHHHHHHHhccccchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeH
Confidence            45678999999999999999999999999999887777799999999999999999999875421     1224555544


Q ss_pred             CCC----cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCcc---------HHHHHHHHHHHHhccCcceEE
Q psy12150        105 SDD----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT---------HAAQAALRRTMEKETKSTRFC  171 (456)
Q Consensus       105 ~~~----~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~---------~~~~~~Ll~~le~~~~~~~lI  171 (456)
                      ...    .........+..+.......        ....+|||||++.+.         .+..+.|...++.  ..+++|
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~~--~~~~ii  156 (187)
T 2p65_A           87 SSLIAGAKYRGDFEERLKSILKEVQDA--------EGQVVMFIDEIHTVVGAGAVAEGALDAGNILKPMLAR--GELRCI  156 (187)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHHHHHT--------TTSEEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHHT--TCSCEE
T ss_pred             HHhhcCCCchhHHHHHHHHHHHHHHhc--------CCceEEEEeCHHHhcccccccccchHHHHHHHHHHhc--CCeeEE
Confidence            321    11122222222222221111        123499999999986         3345566666664  346677


Q ss_pred             EEecCcc-----cccccccCCceEEEecCCC
Q psy12150        172 LICNYVS-----CIIQPLTSRCSKFRFKPLA  197 (456)
Q Consensus       172 l~~~~~~-----kl~~~l~~r~~~i~f~~~~  197 (456)
                      ++++...     .+.+++.+|+..+.+.+|+
T Consensus       157 ~~~~~~~~~~~~~~~~~l~~R~~~i~i~~p~  187 (187)
T 2p65_A          157 GATTVSEYRQFIEKDKALERRFQQILVEQPS  187 (187)
T ss_dssp             EEECHHHHHHHTTTCHHHHHHEEEEECCSCC
T ss_pred             EecCHHHHHHHHhccHHHHHhcCcccCCCCC
Confidence            7777543     5778899999999998875

>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=99.60  E-value=1.6e-14  Score=137.15  Aligned_cols=182  Identities=13%  Similarity=0.186  Sum_probs=117.9

Q ss_pred             cccccHHHHHHHH-------HHHh---cCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc---ChHH
Q psy12150         46 DVIEQQEVVSVLK-------KCLS---GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR---GIQV  112 (456)
Q Consensus        46 ~ivg~~~~~~~l~-------~~l~---~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~---~~~~  112 (456)
                      .++|++..++.+.       +.+.   .....+++|+||||||||++|+++++.+..     .++.+++.+..   ....
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~-----~~~~i~~~~~~~g~~~~~  108 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNF-----PFIKICSPDKMIGFSETA  108 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTC-----SEEEEECGGGCTTCCHHH
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCC-----CEEEEeCHHHhcCCchHH
Confidence            4566655543333       3443   223334999999999999999999998643     56667665411   1111


Q ss_pred             HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCc----------cHHHHHHHHHHHHh---ccCcceEEEEecCccc
Q psy12150        113 IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM----------THAAQAALRRTMEK---ETKSTRFCLICNYVSC  179 (456)
Q Consensus       113 i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l----------~~~~~~~Ll~~le~---~~~~~~lIl~~~~~~k  179 (456)
                      ....+.........         ....+|||||+|.+          ....++.|...++.   ....+++|.++|.+..
T Consensus       109 ~~~~~~~~~~~~~~---------~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~  179 (272)
T 1d2n_A          109 KCQAMKKIFDDAYK---------SQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDV  179 (272)
T ss_dssp             HHHHHHHHHHHHHT---------SSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHH
T ss_pred             HHHHHHHHHHHHHh---------cCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhh
Confidence            11222222222211         13459999999987          34455666666654   2334556777776665


Q ss_pred             ccc-cccCC-ceEEEecCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-----CHHHHHHHHHHHHHhh
Q psy12150        180 IIQ-PLTSR-CSKFRFKPLAE-NTMLTRLQYICEQESVMCDFKALETLVETSGG-----DMRRAITCLQSCARLK  246 (456)
Q Consensus       180 l~~-~l~~r-~~~i~f~~~~~-~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-----dlr~~~~~L~~~~~~~  246 (456)
                      +.+ .+.+| +..+++++++. +++..++..    . ..++++++..+++.+.|     |+|++++.++.+...+
T Consensus       180 l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~----~-~~~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~~  249 (272)
T 1d2n_A          180 LQEMEMLNAFSTTIHVPNIATGEQLLEALEL----L-GNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMD  249 (272)
T ss_dssp             HHHTTCTTTSSEEEECCCEEEHHHHHHHHHH----H-TCSCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTSC
T ss_pred             cchhhhhcccceEEcCCCccHHHHHHHHHHh----c-CCCCHHHHHHHHHHhcCCCccccHHHHHHHHHHHhhhc
Confidence            555 56777 46889988887 666665553    2 25799999999999988     9999999999876643

>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=99.60  E-value=8.3e-15  Score=145.70  Aligned_cols=207  Identities=18%  Similarity=0.196  Sum_probs=135.5

Q ss_pred             cccccHHHHHHHHHHHh----c-------------------------C-CCCeEEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         46 DVIEQQEVVSVLKKCLS----G-------------------------A-DLPHFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~----~-------------------------~-~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      .++|++.+++.+..++.    .                         . ...+++|+||||||||++++++++.+..   
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~---   98 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDI---   98 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTC---
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhCC---
Confidence            47999999988887761    1                         1 1235999999999999999999998743   


Q ss_pred             ccceEEeeCCCCcChH----HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHH
Q psy12150         96 RERILELNASDDRGIQ----VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAAL  157 (456)
Q Consensus        96 ~~~~~e~n~~~~~~~~----~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~L  157 (456)
                        +++.+++......+    .....+..+......... .    ....+|||||++.+...              .++.|
T Consensus        99 --~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~-~----~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~L  171 (376)
T 1um8_A           99 --PIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQ-K----AQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQAL  171 (376)
T ss_dssp             --CEEEEEGGGCC--------CTHHHHHHHHHTTTCHH-H----HTTSEEEEETGGGC--------------CHHHHHHH
T ss_pred             --CEEEecchhhhhcCcCCccHHHHHHHHHhhccchhh-h----cCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHH
Confidence              46666665432111    111222222111100000 0    02339999999999887              88999


Q ss_pred             HHHHHhcc---------------------CcceEEEEecC----------------------------------------
Q psy12150        158 RRTMEKET---------------------KSTRFCLICNY----------------------------------------  176 (456)
Q Consensus       158 l~~le~~~---------------------~~~~lIl~~~~----------------------------------------  176 (456)
                      ++.|+...                     .++++|++++.                                        
T Consensus       172 l~~le~~~~~~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l  251 (376)
T 1um8_A          172 LKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDL  251 (376)
T ss_dssp             HHHHHCCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHH
T ss_pred             HHHhhccceecccccccccCCcceEEEecCCeEEEecCCHHHHHHHHHHHhcccccCCCchhhhccchhHHHhhcCHHHH
Confidence            99998541                     33466666541                                        


Q ss_pred             -cccccccccCCc-eEEEecCCCHHHHHHHHHH----HHH-------H--cCCCCCHHHHHHHHHHcC---CCHHHHHHH
Q psy12150        177 -VSCIIQPLTSRC-SKFRFKPLAENTMLTRLQY----ICE-------Q--ESVMCDFKALETLVETSG---GDMRRAITC  238 (456)
Q Consensus       177 -~~kl~~~l~~r~-~~i~f~~~~~~el~~~l~~----~~~-------~--~~~~i~~~~l~~L~~~s~---gdlr~~~~~  238 (456)
                       ...+.++|.+|+ ..+.|++++.+++..++..    .++       .  .++.+++++++.|++.+.   |++|.+.+.
T Consensus       252 ~~~~~~p~l~~R~~~~i~~~~l~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~  331 (376)
T 1um8_A          252 VTYGLIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAI  331 (376)
T ss_dssp             HHTTCCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHH
T ss_pred             hhcCCChHHhcCCCceeeccCCCHHHHHHHHhhhHHHHHHHHHHHHhhcCceEEECHHHHHHHHHHhcccccCcHHHHHH
Confidence             112456788888 6899999999999998862    211       1  245689999999999864   999999999


Q ss_pred             HHHHHHhh-----C--CC--CCCHHHHHHHhCC
Q psy12150        239 LQSCARLK-----G--GE--GIVNEDVLEVTGV  262 (456)
Q Consensus       239 L~~~~~~~-----~--~~--~It~~~v~~~~~~  262 (456)
                      ++.++...     .  .+  .||.++|.+....
T Consensus       332 le~~~~~~~~~~~~~~~~~~~i~~~~v~~~~~~  364 (376)
T 1um8_A          332 IEDFCLDIMFDLPKLKGSEVRITKDCVLKQAEP  364 (376)
T ss_dssp             HHHHHHHHHHTGGGGTTSEEEECHHHHTTSSCC
T ss_pred             HHHHHHHHHhhccCCCCCEEEEeHHHhcCCCCc
Confidence            99876532     1  11  4888888775543

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.59  E-value=6.1e-14  Score=133.51  Aligned_cols=205  Identities=20%  Similarity=0.163  Sum_probs=134.9

Q ss_pred             CCCCcccccccHHHHHHHHHHHhc-----------CCC-CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         40 RPKTIDDVIEQQEVVSVLKKCLSG-----------ADL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        40 ~P~~~~~ivg~~~~~~~l~~~l~~-----------~~~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      .+.+|++++|.+..+..+.+....           ... ++++|+||+|+|||+++++++..+..     .++.+++.+.
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~-----~~i~~~~~~~  109 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV-----PFITASGSDF  109 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTC-----CEEEEEHHHH
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCC-----CEEEecHHHH
Confidence            567899999999888777655431           122 24999999999999999999998642     4566655331


Q ss_pred             c--ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH-----------HHH---HHHHHHHHhcc--Ccce
Q psy12150        108 R--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH-----------AAQ---AALRRTMEKET--KSTR  169 (456)
Q Consensus       108 ~--~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~-----------~~~---~~Ll~~le~~~--~~~~  169 (456)
                      .  ........+....+.....         ...++++||++.+..           ...   ..++..+....  ...+
T Consensus       110 ~~~~~~~~~~~i~~~~~~~~~~---------~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i  180 (278)
T 1iy2_A          110 VEMFVGVGAARVRDLFETAKRH---------APCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV  180 (278)
T ss_dssp             HHSTTTHHHHHHHHHHHHHHTS---------CSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEE
T ss_pred             HHHHhhHHHHHHHHHHHHHHhc---------CCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEE
Confidence            0  0111122233333322111         123999999986631           112   23333343322  2345


Q ss_pred             EEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCCCH-HHHHHHHHHHHH
Q psy12150        170 FCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGGDM-RRAITCLQSCAR  244 (456)
Q Consensus       170 lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~-~l~~L~~~s~gdl-r~~~~~L~~~~~  244 (456)
                      ++.+++.+..+.+++.+  |+. .+.|++|+.++..++++..++  +..++++ .+..++..+.|+. +.+.+.++.++.
T Consensus       181 ~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~--~~~~~~~~~~~~la~~~~G~~~~dl~~l~~~a~~  258 (278)
T 1iy2_A          181 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLENLLNEAAL  258 (278)
T ss_dssp             EEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHT--TSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHH
T ss_pred             EEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHc--cCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            55667778788888877  443 799999999999999987765  3455544 3788999999977 678888887766


Q ss_pred             hh---CCCCCCHHHHHHHh
Q psy12150        245 LK---GGEGIVNEDVLEVT  260 (456)
Q Consensus       245 ~~---~~~~It~~~v~~~~  260 (456)
                      ++   +...|+.+++.+++
T Consensus       259 ~a~~~~~~~I~~~dl~~a~  277 (278)
T 1iy2_A          259 LAAREGRRKITMKDLEEAA  277 (278)
T ss_dssp             HHHHTTCCSBCHHHHHHHT
T ss_pred             HHHHhCCCCcCHHHHHHHh
Confidence            55   34679999998765

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.59  E-value=7.8e-15  Score=158.90  Aligned_cols=186  Identities=20%  Similarity=0.292  Sum_probs=136.2

Q ss_pred             ccccccHHHHHHHHHHHhcCC--------CC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHH-H
Q psy12150         45 DDVIEQQEVVSVLKKCLSGAD--------LP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVI-R  114 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~~~--------~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i-~  114 (456)
                      +.++|++..+..+...+....        +. +++|+||||||||++|+++++.+....  .+++.+|++........ .
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~--~~~i~i~~s~~~~~~~~~~  568 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDE--ESMIRIDMSEYMEKHSTSG  568 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCT--TCEEEEEGGGGCSSCCCC-
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCC--cceEEEechhccccccccc
Confidence            468999999988888875321        11 499999999999999999999985533  36788888763321110 1


Q ss_pred             HHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc-----------cCcceEEEEecCccc----
Q psy12150        115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRFCLICNYVSC----  179 (456)
Q Consensus       115 ~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~-----------~~~~~lIl~~~~~~k----  179 (456)
                      ..+.......            ++.+|||||++.+..+.++.|++.|++.           ..++++|+++|....    
T Consensus       569 ~~l~~~~~~~------------~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~  636 (758)
T 3pxi_A          569 GQLTEKVRRK------------PYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDK  636 (758)
T ss_dssp             --CHHHHHHC------------SSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHH
T ss_pred             chhhHHHHhC------------CCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHH
Confidence            1111111111            2349999999999999999999999873           346789999985322    


Q ss_pred             --------ccccccCCc-eEEEecCCCHHHHHHHHHHHHHH---------cCCCCCHHHHHHHHHH---cCCCHHHHHHH
Q psy12150        180 --------IIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQ---------ESVMCDFKALETLVET---SGGDMRRAITC  238 (456)
Q Consensus       180 --------l~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~---------~~~~i~~~~l~~L~~~---s~gdlr~~~~~  238 (456)
                              +.+.|.+|+ ..+.|+|++.+++..++...+..         ..+.+++++++.|++.   .+|++|.+.+.
T Consensus       637 ~~~~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~  716 (758)
T 3pxi_A          637 VMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDLEYGARPLRRA  716 (758)
T ss_dssp             HHHHHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHGGGCCTTTTTTTHHHH
T ss_pred             HHHHHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEECHHHHHHHHHhCCCCCCCChHHHHH
Confidence                    667899999 69999999999999998877654         2356899999999875   46899999998


Q ss_pred             HHHHHH
Q psy12150        239 LQSCAR  244 (456)
Q Consensus       239 L~~~~~  244 (456)
                      ++++..
T Consensus       717 i~~~v~  722 (758)
T 3pxi_A          717 IQKHVE  722 (758)
T ss_dssp             HHHHTH
T ss_pred             HHHHHH
Confidence            887543

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.58  E-value=1.3e-14  Score=152.94  Aligned_cols=225  Identities=20%  Similarity=0.220  Sum_probs=152.9

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc----
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR----  108 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~----  108 (456)
                      .....+|+|.+|++++|++.+++.+...+..+.  +++|+||+|||||+++++++..+....+.  .+.+......    
T Consensus        29 ~~~~~~~rp~~l~~i~G~~~~l~~l~~~i~~g~--~vll~Gp~GtGKTtlar~ia~~l~~~~~~--~~~~~~~~~~~~~p  104 (604)
T 3k1j_A           29 TTEEIEVPEKLIDQVIGQEHAVEVIKTAANQKR--HVLLIGEPGTGKSMLGQAMAELLPTETLE--DILVFPNPEDENMP  104 (604)
T ss_dssp             BGGGSCCCSSHHHHCCSCHHHHHHHHHHHHTTC--CEEEECCTTSSHHHHHHHHHHTSCCSSCE--EEEEECCTTCTTSC
T ss_pred             ccCcccccccccceEECchhhHhhccccccCCC--EEEEEeCCCCCHHHHHHHHhccCCcccCC--eEEEeCCcccccCC
Confidence            345679999999999999999999999999873  69999999999999999999987543211  1112111100    


Q ss_pred             --------ChHHHHHHHHHHHHh-----------------------------------------hccC----------CC
Q psy12150        109 --------GIQVIRDKVKTFAQQ-----------------------------------------TASG----------FN  129 (456)
Q Consensus       109 --------~~~~i~~~l~~~~~~-----------------------------------------~~~~----------~~  129 (456)
                              ....+.+........                                         ..++          ..
T Consensus       105 ~i~~~p~g~~~~~~e~~~~~~~~~~~~r~~~~~~~~~~~~~nl~v~~~~~~~~~~v~~~~~~~~~L~G~~~~~~~~~g~~  184 (604)
T 3k1j_A          105 RIKTVPACQGRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKAPFIDATGAHAGALLGDVRHDPFQSGGL  184 (604)
T ss_dssp             EEEEEETTHHHHHHHHHHHHHHHHTCC-----------CCCEEEECCTTCSSCCEEECTTCCHHHHHCEECCCCC----C
T ss_pred             cEEEEecchHHHHHHHHHHhhccchhhhhhcccccccccccceeeccccCCCCCEEEcCCCCHHhcCceEEechhhcCCc
Confidence                    011111111111000                                         0000          00


Q ss_pred             CCC-----CCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhc---------------------cCcceEEEEecCc--
Q psy12150        130 QDG-----KPC----PPFKIVILDEADSMTHAAQAALRRTMEKE---------------------TKSTRFCLICNYV--  177 (456)
Q Consensus       130 ~~~-----~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~---------------------~~~~~lIl~~~~~--  177 (456)
                      ..+     .+.    ++..++||||++.|.+..++.|++.|++.                     +..+++|+++|..  
T Consensus       185 ~~g~~~~i~~g~~~~a~~gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~~~vI~atn~~~~  264 (604)
T 3k1j_A          185 GTPAHERVEPGMIHRAHKGVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNLDTV  264 (604)
T ss_dssp             CCCGGGGEECCHHHHTTTSEEEETTGGGSCHHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECCCEEEEEECHHHH
T ss_pred             cccccccccCceeeecCCCEEEEechhhCCHHHHHHHHHHHHcCcEEecccccccccccCCCCccceeEEEEEecCHHHH
Confidence            000     000    23459999999999999999999999843                     1346688888865  


Q ss_pred             ccccccccCCce----EEEecCC---CHHHHHHHHHHHHHHc-----CCCCCHHHHHHHHHHc---CC-------CHHHH
Q psy12150        178 SCIIQPLTSRCS----KFRFKPL---AENTMLTRLQYICEQE-----SVMCDFKALETLVETS---GG-------DMRRA  235 (456)
Q Consensus       178 ~kl~~~l~~r~~----~i~f~~~---~~~el~~~l~~~~~~~-----~~~i~~~~l~~L~~~s---~g-------dlr~~  235 (456)
                      ..+.++|.+||.    .+.|+..   ..+.+..++...++..     ...++++++..|++.+   .|       ++|.+
T Consensus       265 ~~l~~~l~~R~~v~~i~i~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ls~eAl~~Li~~~~r~~g~r~~l~~~~R~l  344 (604)
T 3k1j_A          265 DKMHPALRSRIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDL  344 (604)
T ss_dssp             HHSCHHHHHHHHHHSEEEECCSEEECCHHHHHHHHHHHHHHHHHHCSSCCBBHHHHHHHHHHHHHTTCSTTEEECCHHHH
T ss_pred             hhcCHHHHHHhhccceEeeccccccCCHHHHHHHHHHHHHHHhhccCcccCCHHHHHHHHHHHhhhhccccccccCHHHH
Confidence            578899999984    5666443   4556677766555432     2578999999999865   55       69999


Q ss_pred             HHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        236 ITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       236 ~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      .+.++.+..++   +...|+.++|.+++.
T Consensus       345 ~~llr~A~~~A~~~~~~~I~~edv~~A~~  373 (604)
T 3k1j_A          345 GGIVRAAGDIAVKKGKKYVEREDVIEAVK  373 (604)
T ss_dssp             HHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcccccHHHHHHHHH
Confidence            99998877665   467899999998874

>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=3.5e-14  Score=153.89  Aligned_cols=183  Identities=18%  Similarity=0.224  Sum_probs=134.8

Q ss_pred             ccccccHHHHHHHHHHHhcC--------CCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC------
Q psy12150         45 DDVIEQQEVVSVLKKCLSGA--------DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG------  109 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~~--------~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~------  109 (456)
                      +.++|++..+..+...+...        ++. +++|+||||||||++++++++.+..     .++.++++....      
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~-----~~~~i~~s~~~~~~~~~~  532 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI-----ELLRFDMSEYMERHTVSR  532 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTC-----EEEEEEGGGCSSSSCCSS
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcC-----CEEEEechhhcchhhHhh
Confidence            35889999998888777532        222 4999999999999999999998832     566666654321      


Q ss_pred             --------hHH-HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------Ccce
Q psy12150        110 --------IQV-IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTR  169 (456)
Q Consensus       110 --------~~~-i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~  169 (456)
                              .+. -...+......            .++.+|||||++.+.++.++.|++.|++..           .+++
T Consensus       533 l~g~~~g~~g~~~~~~l~~~~~~------------~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~  600 (758)
T 1r6b_X          533 LIGAPPGYVGFDQGGLLTDAVIK------------HPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVV  600 (758)
T ss_dssp             SCCCCSCSHHHHHTTHHHHHHHH------------CSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEE
T ss_pred             hcCCCCCCcCccccchHHHHHHh------------CCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeE
Confidence                    110 00111222111            134599999999999999999999999642           4577


Q ss_pred             EEEEecCcc-------------------------cccccccCCc-eEEEecCCCHHHHHHHHHHHHHHc---------CC
Q psy12150        170 FCLICNYVS-------------------------CIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQE---------SV  214 (456)
Q Consensus       170 lIl~~~~~~-------------------------kl~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~~---------~~  214 (456)
                      +|+++|...                         .+.++|.+|+ ..+.|++++.+++..++...+.+.         .+
T Consensus       601 iI~tsN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~  680 (758)
T 1r6b_X          601 LVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSL  680 (758)
T ss_dssp             EEEEECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEE
T ss_pred             EEEecCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHhhCCcceeeCCCCHHHHHHHHHHHHHHHHHHHHHCCcEE
Confidence            888888532                         4567788999 589999999999999998887632         34


Q ss_pred             CCCHHHHHHHHHHc---CCCHHHHHHHHHHHHH
Q psy12150        215 MCDFKALETLVETS---GGDMRRAITCLQSCAR  244 (456)
Q Consensus       215 ~i~~~~l~~L~~~s---~gdlr~~~~~L~~~~~  244 (456)
                      .+++++++.|++.+   +++.|.+.+.++.++.
T Consensus       681 ~~~~~a~~~l~~~~~~~~~g~R~l~~~i~~~~~  713 (758)
T 1r6b_X          681 EVSQEARNWLAEKGYDRAMGARPMARVIQDNLK  713 (758)
T ss_dssp             EECHHHHHHHHHHHCBTTTBTTTHHHHHHHHHT
T ss_pred             EeCHHHHHHHHHhCCCcCCCchHHHHHHHHHHH
Confidence            68999999999876   4558888888887654

>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=99.54  E-value=9.9e-15  Score=159.91  Aligned_cols=187  Identities=18%  Similarity=0.268  Sum_probs=138.4

Q ss_pred             ccccccHHHHHHHHHHHhcCC--------C-CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHH
Q psy12150         45 DDVIEQQEVVSVLKKCLSGAD--------L-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRD  115 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~~~--------~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~  115 (456)
                      +.++|++..++.+...+...+        + .+++|+||+|||||++++++++.+....  ..++.+|++..........
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~--~~~i~i~~~~~~~~~~~s~  635 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTE--EAMIRIDMTEYMEKHAVSR  635 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSG--GGEEEECTTTCCSSGGGGG
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCC--CcEEEEechhccchhHHHH
Confidence            568999999988888875431        2 2499999999999999999999986543  3678888876433211110


Q ss_pred             ---------------HHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------Ccce
Q psy12150        116 ---------------KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTR  169 (456)
Q Consensus       116 ---------------~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~  169 (456)
                                     .+......            .++.+|||||++.+..+.++.|++.|++..           .+++
T Consensus       636 l~g~~~~~~G~~~~g~l~~~~~~------------~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~i  703 (854)
T 1qvr_A          636 LIGAPPGYVGYEEGGQLTEAVRR------------RPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTV  703 (854)
T ss_dssp             C--------------CHHHHHHH------------CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEE
T ss_pred             HcCCCCCCcCccccchHHHHHHh------------CCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeE
Confidence                           11111111            134599999999999999999999998753           3567


Q ss_pred             EEEEecCc--------------------------ccccccccCCc-eEEEecCCCHHHHHHHHHHHHHH-------c--C
Q psy12150        170 FCLICNYV--------------------------SCIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQ-------E--S  213 (456)
Q Consensus       170 lIl~~~~~--------------------------~kl~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~-------~--~  213 (456)
                      +|+++|..                          ..+.+.|.+|+ ..+.|.|++.+++..++...+.+       .  .
T Consensus       704 iI~tsn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~Rl~~~i~~~pl~~edi~~i~~~~l~~~~~~~~~~~~~  783 (854)
T 1qvr_A          704 IILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRIS  783 (854)
T ss_dssp             EEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCE
T ss_pred             EEEecCcChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHHhcCeEEeCCCCCHHHHHHHHHHHHHHHHHHHHhCCce
Confidence            88888851                          23456688888 58899999999999998877653       1  2


Q ss_pred             CCCCHHHHHHHHHHc---CCCHHHHHHHHHHHHHh
Q psy12150        214 VMCDFKALETLVETS---GGDMRRAITCLQSCARL  245 (456)
Q Consensus       214 ~~i~~~~l~~L~~~s---~gdlr~~~~~L~~~~~~  245 (456)
                      ..+++++++.|+..+   +|++|.+.+.++++...
T Consensus       784 ~~~~~~a~~~L~~~~~~~~gn~R~L~~~i~~~~~~  818 (854)
T 1qvr_A          784 LELTEAAKDFLAERGYDPVFGARPLRRVIQRELET  818 (854)
T ss_dssp             EEECHHHHHHHHHHHCBTTTBTSTHHHHHHHHTHH
T ss_pred             EEECHHHHHHHHHcCCCCCCChHHHHHHHHHHHHH
Confidence            468999999999875   59999999999886553

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.49  E-value=3.1e-13  Score=138.12  Aligned_cols=211  Identities=12%  Similarity=0.085  Sum_probs=134.7

Q ss_pred             ccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH--HHHHHH
Q psy12150         45 DDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK--VKTFAQ  122 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~--l~~~~~  122 (456)
                      ..++|++++++.+...+..+.  +++|+||||||||++|+++++.+....   .+...++.. .....+...  ......
T Consensus        22 ~~ivGq~~~i~~l~~al~~~~--~VLL~GpPGtGKT~LAraLa~~l~~~~---~f~~~~~~~-~t~~dL~G~~~~~~~~~   95 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAFQNAR---AFEYLMTRF-STPEEVFGPLSIQALKD   95 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHTC--EEEEECCSSSSHHHHHHHGGGGBSSCC---EEEEECCTT-CCHHHHHCCBC------
T ss_pred             hhhHHHHHHHHHHHHHHhcCC--eeEeecCchHHHHHHHHHHHHHHhhhh---HHHHHHHhc-CCHHHhcCcccHHHHhh
Confidence            357899999999988887663  799999999999999999999874321   233333332 111211110  000000


Q ss_pred             hhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc----------CcceEEEEecCccc---ccccccCCce
Q psy12150        123 QTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET----------KSTRFCLICNYVSC---IIQPLTSRCS  189 (456)
Q Consensus       123 ~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~----------~~~~lIl~~~~~~k---l~~~l~~r~~  189 (456)
                      ....... ..++.+...++||||++.+.+..++.|+..|++..          +..++|+++|....   ..+++.+|+.
T Consensus        96 ~g~~~~~-~~g~l~~~~IL~IDEI~r~~~~~q~~LL~~lee~~v~i~G~~~~~~~~~iI~ATN~lpe~~~~~~aLldRF~  174 (500)
T 3nbx_X           96 EGRYERL-TSGYLPEAEIVFLDEIWKAGPAILNTLLTAINERQFRNGAHVEKIPMRLLVAASNELPEADSSLEALYDRML  174 (500)
T ss_dssp             ----CBC-CTTSGGGCSEEEEESGGGCCHHHHHHHHHHHHSSEEECSSSEEECCCCEEEEEESSCCCTTCTTHHHHTTCC
T ss_pred             chhHHhh-hccCCCcceeeeHHhHhhhcHHHHHHHHHHHHHHhccCCCCcCCcchhhhhhccccCCCccccHHHHHHHHH
Confidence            0000000 01110123499999999999999999999997531          22345777775322   3457888875


Q ss_pred             -EEEecCCCH-HHHHHHHHHHH-----------------------HHcCCCCCHHHHHHHHHHc----------CCCHHH
Q psy12150        190 -KFRFKPLAE-NTMLTRLQYIC-----------------------EQESVMCDFKALETLVETS----------GGDMRR  234 (456)
Q Consensus       190 -~i~f~~~~~-~el~~~l~~~~-----------------------~~~~~~i~~~~l~~L~~~s----------~gdlr~  234 (456)
                       .+.+++|+. ++...++....                       .-.++.+++++++.+++..          +.+.|.
T Consensus       175 ~~i~v~~p~~~ee~~~IL~~~~~~~~~~~~~~~~~~~e~l~~~~~~~~~v~v~d~v~e~i~~l~~~lr~~r~~~~iS~R~  254 (500)
T 3nbx_X          175 IRLWLDKVQDKANFRSMLTSQQDENDNPVPDALQVTDEEYERWQKEIGEITLPDHVFELIFMLRQQLDKLPDAPYVSDRR  254 (500)
T ss_dssp             EEEECCSCCCHHHHHHHHTCCCCTTSCCSCTTTSBCHHHHHHHHHHHTTCBCCHHHHHHHHHHHHHHHHCSSSCCCCHHH
T ss_pred             HHHHHHHhhhhhhHHHHHhcccccCCCCCCccceecHHHHHHHHhcCCcccCchHHHHHHHHHHHHhhcCCCCCccchhH
Confidence             588888887 55666665432                       1236778999999988765          558898


Q ss_pred             HHHHHHHHHHhh---CCCCCCHHHHHHHhCCC
Q psy12150        235 AITCLQSCARLK---GGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       235 ~~~~L~~~~~~~---~~~~It~~~v~~~~~~~  263 (456)
                      ++..+..+..++   +...|+.+||. ++...
T Consensus       255 ~~~llr~A~A~A~l~gr~~Vt~eDv~-~a~~v  285 (500)
T 3nbx_X          255 WKKAIRLLQASAFFSGRSAVAPVDLI-LLKDC  285 (500)
T ss_dssp             HHHHHHHHHHHHHHTTCSBCCGGGGG-GGGGT
T ss_pred             HHHHHHHHHHHHhhcCCccccchHHH-HHHhh
Confidence            877776654444   67789999998 55443

>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=99.47  E-value=1.6e-13  Score=135.74  Aligned_cols=205  Identities=18%  Similarity=0.198  Sum_probs=132.8

Q ss_pred             cccccHHHHHHHHHHHh-------------cC--CCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh
Q psy12150         46 DVIEQQEVVSVLKKCLS-------------GA--DLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~-------------~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~  110 (456)
                      .++|++.+++.+...+.             ..  ...+++|+||||||||++|+++++.+..     +++.++++.....
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~-----~~~~~~~~~l~~~   90 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDV-----PFTMADATTLTEA   90 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTC-----CEEEEEHHHHTTC
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCC-----CEEEechHHhccc
Confidence            36999999999888872             11  2234999999999999999999998743     5777777653321


Q ss_pred             HH----HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHHHHHHHhc--------
Q psy12150        111 QV----IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEKE--------  164 (456)
Q Consensus       111 ~~----i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~Ll~~le~~--------  164 (456)
                      ..    ....+..+......... .    ....+|||||++.+...              .++.|++.|+..        
T Consensus        91 ~~~g~~~~~~~~~~~~~~~~~~~-~----~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~  165 (363)
T 3hws_A           91 GYVGEDVENIIQKLLQKCDYDVQ-K----AQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQG  165 (363)
T ss_dssp             HHHHHHHTHHHHHHHHHTTTCHH-H----HHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC--------
T ss_pred             ccccccHHHHHHHHHHHhhhhHH-h----cCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCcc
Confidence            11    12222222211100000 0    02239999999988765              789999999821        


Q ss_pred             -------------cCcceEEEEecCc----------cc-----------------------------------ccccccC
Q psy12150        165 -------------TKSTRFCLICNYV----------SC-----------------------------------IIQPLTS  186 (456)
Q Consensus       165 -------------~~~~~lIl~~~~~----------~k-----------------------------------l~~~l~~  186 (456)
                                   ..+..||++++..          .+                                   +.+.|.+
T Consensus       166 ~~~~~~~~~~~i~tsn~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~  245 (363)
T 3hws_A          166 GRKHPQQEFLQVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIG  245 (363)
T ss_dssp             --------CCCCCTTSSEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHT
T ss_pred             ccccCCCceEEEECCCceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhc
Confidence                         1234455555421          11                                   5677888


Q ss_pred             Cce-EEEecCCCHHHHHHHHHH----HH-------HHcC--CCCCHHHHHHHHHH---cCCCHHHHHHHHHHHHHhh---
Q psy12150        187 RCS-KFRFKPLAENTMLTRLQY----IC-------EQES--VMCDFKALETLVET---SGGDMRRAITCLQSCARLK---  246 (456)
Q Consensus       187 r~~-~i~f~~~~~~el~~~l~~----~~-------~~~~--~~i~~~~l~~L~~~---s~gdlr~~~~~L~~~~~~~---  246 (456)
                      |+. .+.|.|++.+++.+++..    .+       ...+  +.+++++++.|+..   .+++.|.+.+.++++....   
T Consensus       246 R~~~~~~~~pl~~~~~~~I~~~~~~~l~~~~~~~~~~~~~~l~~~~~a~~~L~~~~~~~~~gaR~L~~~ie~~~~~~l~~  325 (363)
T 3hws_A          246 RLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYD  325 (363)
T ss_dssp             TCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTTTTHHHHHHHHHHHHHHS
T ss_pred             ccCeeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHhhcCCccCchHHHHHHHHHHHHHHHh
Confidence            987 556999999998888775    22       2223  45799999999964   3678899999998876543   


Q ss_pred             --CC-C----CCCHHHHHHHh
Q psy12150        247 --GG-E----GIVNEDVLEVT  260 (456)
Q Consensus       247 --~~-~----~It~~~v~~~~  260 (456)
                        .. .    .||.++|++..
T Consensus       326 ~~~~~~~~~~~I~~~~v~~~~  346 (363)
T 3hws_A          326 LPSMEDVEKVVIDESVIDGQS  346 (363)
T ss_dssp             TTTCCCSEEEECHHHHTTCCS
T ss_pred             cccccCCceeEEcHHHHhCcC
Confidence              22 1    36666665544

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.43  E-value=9.6e-12  Score=117.91  Aligned_cols=211  Identities=17%  Similarity=0.173  Sum_probs=127.5

Q ss_pred             CCCcccccccHHHHHHHHHHHh------------cCCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC
Q psy12150         41 PKTIDDVIEQQEVVSVLKKCLS------------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD  107 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~l~------------~~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~  107 (456)
                      ..+|+++.|.+++++.|.+.+.            +-.++ +++|+||||||||+++++++..+..     .++.+++.+.
T Consensus         6 ~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~-----~~i~i~g~~l   80 (274)
T 2x8a_A            6 NVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGL-----NFISVKGPEL   80 (274)
T ss_dssp             ------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTC-----EEEEEETTTT
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCC-----CEEEEEcHHH
Confidence            4589999999999988887642            11222 3999999999999999999998643     4677777654


Q ss_pred             cC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH-----------HHHHHHHHHHhcc--CcceEEE
Q psy12150        108 RG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA-----------AQAALRRTMEKET--KSTRFCL  172 (456)
Q Consensus       108 ~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~-----------~~~~Ll~~le~~~--~~~~lIl  172 (456)
                      ..  .......+....+.+...         ...++++||++.+...           ..+.++..|....  ...+++.
T Consensus        81 ~~~~~~~~~~~i~~vf~~a~~~---------~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia  151 (274)
T 2x8a_A           81 LNMYVGESERAVRQVFQRAKNS---------APCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMA  151 (274)
T ss_dssp             CSSTTHHHHHHHHHHHHHHHHT---------CSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEE
T ss_pred             HhhhhhHHHHHHHHHHHHHHhc---------CCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEe
Confidence            22  233333444443332111         1239999999987421           1234444554332  3355666


Q ss_pred             EecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHc-CCCCC-HHHHHHHHHHc------CCCHHHHHHHHHH
Q psy12150        173 ICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQE-SVMCD-FKALETLVETS------GGDMRRAITCLQS  241 (456)
Q Consensus       173 ~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~-~~~i~-~~~l~~L~~~s------~gdlr~~~~~L~~  241 (456)
                      ++|.++.+.+++.+  |+. .+.++.|+.++..++++..++.. ...++ +..++.++..+      ++|+..+.++...
T Consensus       152 ~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~~~~~~g~sgadl~~l~~~a~~  231 (274)
T 2x8a_A          152 ATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASI  231 (274)
T ss_dssp             EESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHTCSGGGSCCHHHHHHHHHHHHH
T ss_pred             ecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHHhhccCCcCHHHHHHHHHHHHH
Confidence            77888888888887  665 78999999999999999887542 22222 33356666532      3355444433322


Q ss_pred             HHHhh-----------CCCCCCHHHHHHHhCCCCH
Q psy12150        242 CARLK-----------GGEGIVNEDVLEVTGVIPK  265 (456)
Q Consensus       242 ~~~~~-----------~~~~It~~~v~~~~~~~~~  265 (456)
                      .+...           +...|+.+|+.+++....+
T Consensus       232 ~a~~~~~~~~~~~~~~~~~~i~~~df~~al~~~~p  266 (274)
T 2x8a_A          232 CALRQEMARQKSGNEKGELKVSHKHFEEAFKKVRS  266 (274)
T ss_dssp             HHHHHHC-----------CCBCHHHHHHHHTTCCC
T ss_pred             HHHHHHHhhccccccccCCeecHHHHHHHHHHhcC
Confidence            11110           1236888999888876654

>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=99.41  E-value=1.9e-12  Score=129.55  Aligned_cols=127  Identities=20%  Similarity=0.206  Sum_probs=92.6

Q ss_pred             cEEEEEcCCCCccH------------HHHHHHHHHHHhc----------cCcceEEEEe----cCcccccccccCCceE-
Q psy12150        138 FKIVILDEADSMTH------------AAQAALRRTMEKE----------TKSTRFCLIC----NYVSCIIQPLTSRCSK-  190 (456)
Q Consensus       138 ~~iviIDE~d~l~~------------~~~~~Ll~~le~~----------~~~~~lIl~~----~~~~kl~~~l~~r~~~-  190 (456)
                      ..++++||+|.+..            ..|++|++.|+..          ..++.||+++    ..+..+.+.|.+|+.+ 
T Consensus       251 ~~il~~DEidki~~~~~~~~~D~s~egvq~aLL~~le~~~~~~~~~~~d~~~ilfI~~gaf~~~~~~dlipel~~R~~i~  330 (444)
T 1g41_A          251 NGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIR  330 (444)
T ss_dssp             HCEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSCCGGGSCHHHHTTCCEE
T ss_pred             CCeeeHHHHHHHhhccCCCCCCchHHHHHHHHHHHhcccccccccceecCCcEEEEeccccccCChhhcchHHhccccee
Confidence            44899999998853            2578999999852          3456677776    2445577899999885 


Q ss_pred             EEecCCCHHHHHHHHHH-----------HHHHcC--CCCCHHHHHHHHHH--------cCCCHHHHHHHHHHHHHhh---
Q psy12150        191 FRFKPLAENTMLTRLQY-----------ICEQES--VMCDFKALETLVET--------SGGDMRRAITCLQSCARLK---  246 (456)
Q Consensus       191 i~f~~~~~~el~~~l~~-----------~~~~~~--~~i~~~~l~~L~~~--------s~gdlr~~~~~L~~~~~~~---  246 (456)
                      +.|++++.+++.+++..           .+..++  +.++++++..|++.        -++..|.+.+.+++++...   
T Consensus       331 i~l~~lt~~e~~~Il~~~~~~l~~q~~~~~~~~~~~l~~~~~al~~i~~~a~~~~~~t~~~GaR~L~~~ie~~~~~~~~~  410 (444)
T 1g41_A          331 VELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFS  410 (444)
T ss_dssp             EECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHHHHHHHHHH
T ss_pred             eeCCCCCHHHHHHHHHHHHHhHHHHHHHHhcccCceEEECHHHHHHHHHHHHHhccCCccCCchHHHHHHHHHHHHHHhh
Confidence            89999999999998831           222234  35899999999985        2577888888888765532   


Q ss_pred             --C--CC--CCCHHHHHHHhCCCC
Q psy12150        247 --G--GE--GIVNEDVLEVTGVIP  264 (456)
Q Consensus       247 --~--~~--~It~~~v~~~~~~~~  264 (456)
                        .  ++  .||.+.|...++...
T Consensus       411 ~~~~~~~~~~i~~~~v~~~l~~~~  434 (444)
T 1g41_A          411 ASDMNGQTVNIDAAYVADALGEVV  434 (444)
T ss_dssp             GGGCTTCEEEECHHHHHHHHTTTT
T ss_pred             ccccCCCeEEEeHHHHHHhcCccc
Confidence              1  11  478888888777654

>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=99.40  E-value=1.5e-13  Score=146.80  Aligned_cols=179  Identities=21%  Similarity=0.266  Sum_probs=108.0

Q ss_pred             CCcccccccHHHHHHHHHHHhc-----------C-CCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC--
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSG-----------A-DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD--  106 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~-----------~-~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~--  106 (456)
                      .+|+++.|.+++++.|++.+.-           + .++ .+|||||||||||.+|++++.++..     +++.++.++  
T Consensus       474 v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~-----~f~~v~~~~l~  548 (806)
T 3cf2_A          474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQA-----NFISIKGPELL  548 (806)
T ss_dssp             CCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTC-----EEEECCHHHHH
T ss_pred             CCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCC-----ceEEeccchhh
Confidence            4789999999999999877631           2 222 2999999999999999999999754     455554433  


Q ss_pred             ----CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHHHHHHHhc--cC
Q psy12150        107 ----DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEKE--TK  166 (456)
Q Consensus       107 ----~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~Ll~~le~~--~~  166 (456)
                          ..+...+++.+..+...         .||    ||||||+|.+...              ..+.|+..|+..  ..
T Consensus       549 s~~vGese~~vr~lF~~Ar~~---------~P~----IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~  615 (806)
T 3cf2_A          549 TMWFGESEANVREIFDKARQA---------APC----VLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK  615 (806)
T ss_dssp             TTTCSSCHHHHHHHHHHHHTT---------CSE----EEECSCGGGCC--------------CHHHHHHHHHHHSSCSSS
T ss_pred             ccccchHHHHHHHHHHHHHHc---------CCc----eeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCC
Confidence                12223343333332211         233    9999999998532              245567777643  33


Q ss_pred             cceEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc----CCCHHHHHHHH
Q psy12150        167 STRFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETS----GGDMRRAITCL  239 (456)
Q Consensus       167 ~~~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s----~gdlr~~~~~L  239 (456)
                      .+++|.++|.++.+.+++.+  |+. .+.|+.|+.++..++++..+++.... ++-.++.|++.+    +.|+..+.+.-
T Consensus       616 ~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~-~~~dl~~la~~t~g~SGadi~~l~~~A  694 (806)
T 3cf2_A          616 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQRA  694 (806)
T ss_dssp             SEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--C-CC----------------CHHHHHHHH
T ss_pred             CEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCCHHHHHHHHHHH
Confidence            46677788899999999987  765 89999999999999988777654332 223466677655    45776665544

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.39  E-value=8.7e-13  Score=112.77  Aligned_cols=132  Identities=17%  Similarity=0.201  Sum_probs=90.0

Q ss_pred             cccccHHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHh
Q psy12150         46 DVIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQ  123 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~--~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~  123 (456)
                      +++|++..++.+.+.++.  ....+++|+||||||||++|+++++......  ..++ +++............+.    .
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~--~~~v-~~~~~~~~~~~~~~~~~----~   74 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNAQ--GEFV-YRELTPDNAPQLNDFIA----L   74 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTTT--SCCE-EEECCTTTSSCHHHHHH----H
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCccC--CCEE-EECCCCCcchhhhcHHH----H
Confidence            678999998888887753  2334599999999999999999998754322  2566 77776433322222221    1


Q ss_pred             hccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcc-------cccccccCCce--EEEec
Q psy12150        124 TASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS-------CIIQPLTSRCS--KFRFK  194 (456)
Q Consensus       124 ~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~-------kl~~~l~~r~~--~i~f~  194 (456)
                      ...            .++||||++.+..+.+..|+++|+.....+.+|+++|...       .+.+.+..|..  .++++
T Consensus        75 a~~------------g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~~~~~~~~~~~~~~~L~~rl~~~~i~lP  142 (145)
T 3n70_A           75 AQG------------GTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDTSLVELAASNHIIAELYYCFAMTQIACL  142 (145)
T ss_dssp             HTT------------SCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESSCHHHHHHHSCCCHHHHHHHHHHEEECC
T ss_pred             cCC------------cEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCcCHHHHHHcCCCCHHHHHHhcCCEEeCC
Confidence            111            2899999999999999999999987777788888888532       23344445543  55665


Q ss_pred             CC
Q psy12150        195 PL  196 (456)
Q Consensus       195 ~~  196 (456)
                      |+
T Consensus       143 pL  144 (145)
T 3n70_A          143 PL  144 (145)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.38  E-value=1.7e-11  Score=117.44  Aligned_cols=153  Identities=14%  Similarity=0.198  Sum_probs=93.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc--ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDE  145 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~--~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE  145 (456)
                      .+|||||||||||++++++++.+..     +++.+++++..  ..+.....+.......... .....++    ||+|||
T Consensus        38 ~lLl~GppGtGKT~la~aiA~~l~~-----~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~-~~~~~~~----vl~iDE  107 (293)
T 3t15_A           38 ILGIWGGKGQGKSFQCELVFRKMGI-----NPIMMSAGELESGNAGEPAKLIRQRYREAAEI-IRKGNMC----CLFIND  107 (293)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTC-----CCEEEEHHHHHCC---HHHHHHHHHHHHHHHH-HTTSSCC----CEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEeHHHhhhccCchhHHHHHHHHHHHHHH-HhcCCCe----EEEEec
Confidence            3999999999999999999999844     56666654321  1122222222222221000 0011223    999999


Q ss_pred             CCCccHH-------------HHHHHHHHHHh-------------ccCcceEEEEecCcccccccccC--CceEEEecCCC
Q psy12150        146 ADSMTHA-------------AQAALRRTMEK-------------ETKSTRFCLICNYVSCIIQPLTS--RCSKFRFKPLA  197 (456)
Q Consensus       146 ~d~l~~~-------------~~~~Ll~~le~-------------~~~~~~lIl~~~~~~kl~~~l~~--r~~~i~f~~~~  197 (456)
                      +|.+.+.             .+..|++.++.             ....+++|+++|.+..+.+++.+  |+..+-+ .|+
T Consensus       108 iD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~-~P~  186 (293)
T 3t15_A          108 LDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW-APT  186 (293)
T ss_dssp             CC--------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEE-CCC
T ss_pred             hhhhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEe-CcC
Confidence            9988651             34678888762             22457889999999999999885  5554334 469


Q ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-cCCCHH
Q psy12150        198 ENTMLTRLQYICEQESVMCDFKALETLVET-SGGDMR  233 (456)
Q Consensus       198 ~~el~~~l~~~~~~~~~~i~~~~l~~L~~~-s~gdlr  233 (456)
                      .++..++++..+...+  ++.+.+..+... ++.++.
T Consensus       187 ~~~r~~Il~~~~~~~~--~~~~~l~~~~~~~~~~~l~  221 (293)
T 3t15_A          187 REDRIGVCTGIFRTDN--VPAEDVVKIVDNFPGQSID  221 (293)
T ss_dssp             HHHHHHHHHHHHGGGC--CCHHHHHHHHHHSCSCCHH
T ss_pred             HHHHHHHHHHhccCCC--CCHHHHHHHhCCCCcccHH
Confidence            9999999998887654  556666665554 455664

>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=99.38  E-value=6.7e-12  Score=124.97  Aligned_cols=212  Identities=16%  Similarity=0.154  Sum_probs=140.4

Q ss_pred             cccccccHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHH
Q psy12150         44 IDDVIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFA  121 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~  121 (456)
                      ++.++|....+..+.+.+..-.  ..+++++|++|+||++++++++......  ..+++.+||.... .+.+...+....
T Consensus       136 ~~~~ig~s~~m~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lAr~ih~~s~r~--~~~fv~v~~~~~~-~~~~~~elfg~~  212 (387)
T 1ny5_A          136 EEEYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSDRS--KEPFVALNVASIP-RDIFEAELFGYE  212 (387)
T ss_dssp             CCCCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHSTTT--TSCEEEEETTTSC-HHHHHHHHHCBC
T ss_pred             chhhhhccHHhhHHHHHHHHhcCCCCCeEEecCCCcCHHHHHHHHHHhcCCC--CCCeEEEecCCCC-HHHHHHHhcCCC
Confidence            4567887777777766654322  2239999999999999999999875432  3478899998632 222222211111


Q ss_pred             HhhccCCCCCCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------cc
Q psy12150        122 QQTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SC  179 (456)
Q Consensus       122 ~~~~~~~~~~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~k  179 (456)
                      ...+.+ ....+++    ++..++|+||++.|+.+.|..|+++|++..           ..+++|+++|..       ..
T Consensus       213 ~g~~tg-a~~~~~g~~~~a~~gtlfldei~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~~~~g~  291 (387)
T 1ny5_A          213 KGAFTG-AVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGK  291 (387)
T ss_dssp             TTSSTT-CCSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTS
T ss_pred             CCCCCC-cccccCCceeeCCCcEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCCCCHHHHHHcCC
Confidence            111111 0001111    345599999999999999999999998632           356788888753       22


Q ss_pred             ccccccCCce--EEEecCCCH--HHHHHHHHHH----HHHcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhC
Q psy12150        180 IIQPLTSRCS--KFRFKPLAE--NTMLTRLQYI----CEQESV---MCDFKALETLVETS-GGDMRRAITCLQSCARLKG  247 (456)
Q Consensus       180 l~~~l~~r~~--~i~f~~~~~--~el~~~l~~~----~~~~~~---~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~~  247 (456)
                      +.+.|..|..  .++++|+.+  +++..++...    +.+.+.   .+++++++.|..+. +||+|++.|.++.++..+.
T Consensus       292 fr~dl~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~l~~~~wpGNvreL~~~i~~~~~~~~  371 (387)
T 1ny5_A          292 FREDLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSE  371 (387)
T ss_dssp             SCHHHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCC
T ss_pred             ccHHHHHhhcCCeecCCcchhccccHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhCC
Confidence            3344444543  567777764  5665554444    334443   47999999999765 9999999999999998887


Q ss_pred             CCCCCHHHHHHH
Q psy12150        248 GEGIVNEDVLEV  259 (456)
Q Consensus       248 ~~~It~~~v~~~  259 (456)
                      +..|+.+++...
T Consensus       372 ~~~i~~~~l~~~  383 (387)
T 1ny5_A          372 GKFIDRGELSCL  383 (387)
T ss_dssp             SSEECHHHHHHH
T ss_pred             CCcCcHHHCcHh
Confidence            778998887543

>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=99.34  E-value=1.4e-11  Score=121.84  Aligned_cols=203  Identities=18%  Similarity=0.193  Sum_probs=134.2

Q ss_pred             ccccccHHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHH
Q psy12150         45 DDVIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQ  122 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~--~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~  122 (456)
                      .+++|....+..+...+..  ....+++++|++|+||+.+++.++.......   .++.+||..... +.+...+.....
T Consensus       129 ~~~ig~s~~~~~~~~~~~~~a~~~~~vli~GesGtGKe~lAr~ih~~s~r~~---~fv~vnc~~~~~-~~~~~~lfg~~~  204 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPKIAKSKAPVLITGESGTGKEIVARLIHRYSGRKG---AFVDLNCASIPQ-ELAESELFGHEK  204 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHHTSCSCEEEECCTTSSHHHHHHHHHHHHCCCS---CEEEEESSSSCT-TTHHHHHHEECS
T ss_pred             ccccccchHHHHHHhhhhhhhccchhheEEeCCCchHHHHHHHHHHhccccC---CcEEEEcccCCh-HHHHHHhcCccc
Confidence            3577877776666555432  1223499999999999999999998764322   388999987432 122221111000


Q ss_pred             hhccCCCCCCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------ccc
Q psy12150        123 QTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCI  180 (456)
Q Consensus       123 ~~~~~~~~~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~kl  180 (456)
                      ..+.+ ....+++    ++..++|+||++.|+...|..|+++|++..           ..+++|.+++..       ..+
T Consensus       205 g~~tg-a~~~~~g~~~~a~~gtlfldei~~l~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~v~~g~f  283 (368)
T 3dzd_A          205 GAFTG-ALTRKKGKLELADQGTLFLDEVGELDQRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISATNKNLEEEIKKGNF  283 (368)
T ss_dssp             CSSSS-CCCCEECHHHHTTTSEEEEETGGGSCHHHHHHHHHHHHHSEECCBTCCCBEECCCEEEEEESSCHHHHHHTTSS
T ss_pred             cccCC-cccccCChHhhcCCCeEEecChhhCCHHHHHHHHHHHHhCCcccCCCCcceeeeeEEEEecCCCHHHHHHcCCc
Confidence            00100 0000000    234589999999999999999999998642           246688888743       233


Q ss_pred             cccccCCce--EEEecCCCH--HHHHHHHHHHH----HHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCC
Q psy12150        181 IQPLTSRCS--KFRFKPLAE--NTMLTRLQYIC----EQES---VMCDFKALETLVETS-GGDMRRAITCLQSCARLKGG  248 (456)
Q Consensus       181 ~~~l~~r~~--~i~f~~~~~--~el~~~l~~~~----~~~~---~~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~~~  248 (456)
                      -+.|..|+.  .++++|+.+  +++..++...+    .+.+   ..+++++++.|..+. +||+|++.|.++.++..+.+
T Consensus       284 r~dL~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpGNvreL~n~i~~~~~~~~~  363 (368)
T 3dzd_A          284 REDLYYRLSVFQIYLPPLRERGKDVILLAEYFLKKFAKEYKKNCFELSEETKEYLMKQEWKGNVRELKNLIERAVILCEG  363 (368)
T ss_dssp             CHHHHHHHTSEEEECCCGGGSTTHHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHTCCCTTHHHHHHHHHHHHHHTCCS
T ss_pred             cHHHHHHhCCeEEeCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhCCC
Confidence            445666665  567888877  67666555444    3334   458999999999876 99999999999999887766


Q ss_pred             CCCC
Q psy12150        249 EGIV  252 (456)
Q Consensus       249 ~~It  252 (456)
                      +.|+
T Consensus       364 ~~i~  367 (368)
T 3dzd_A          364 EVIK  367 (368)
T ss_dssp             SBCC
T ss_pred             CccC
Confidence            6664

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.34  E-value=7.2e-11  Score=115.36  Aligned_cols=188  Identities=16%  Similarity=0.116  Sum_probs=120.2

Q ss_pred             CcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc------ChHHHHHH
Q psy12150         43 TIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR------GIQVIRDK  116 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~------~~~~i~~~  116 (456)
                      .-+.++|++..++.|.+++..+  +.++|+||+|+|||++++.+++...       ++.+++....      ....+...
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~   80 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNERP-------GILIDCRELYAERGHITREELIKE   80 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHSS-------EEEEEHHHHHHTTTCBCHHHHHHH
T ss_pred             ChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHcC-------cEEEEeecccccccCCCHHHHHHH
Confidence            3457899999999999999875  5699999999999999999998751       3444433211      11111111


Q ss_pred             HHHHHHh------h--------ccCCCCCCCCC-------------CCcEEEEEcCCCCccH-------HHHHHHHHHHH
Q psy12150        117 VKTFAQQ------T--------ASGFNQDGKPC-------------PPFKIVILDEADSMTH-------AAQAALRRTME  162 (456)
Q Consensus       117 l~~~~~~------~--------~~~~~~~~~~~-------------~~~~iviIDE~d~l~~-------~~~~~Ll~~le  162 (456)
                      +......      .        ...........             .+..+|||||++.+..       +....|...++
T Consensus        81 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~  160 (350)
T 2qen_A           81 LQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYD  160 (350)
T ss_dssp             HHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHH
Confidence            1110000      0        00000000000             0134899999999864       33444545554


Q ss_pred             hccCcceEEEEecCc---cc------ccccccCCc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCH
Q psy12150        163 KETKSTRFCLICNYV---SC------IIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDM  232 (456)
Q Consensus       163 ~~~~~~~lIl~~~~~---~k------l~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdl  232 (456)
                      .. ..+.+|+++...   ..      ...++..|. ..+++.|++.++..+++...+...|..++++.+..++..++|++
T Consensus       161 ~~-~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~tgG~P  239 (350)
T 2qen_A          161 SL-PNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVPENEIEEAVELLDGIP  239 (350)
T ss_dssp             HC-TTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHTTCH
T ss_pred             hc-CCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCH
Confidence            43 356677776542   11      123344444 48999999999999999988887888899999999999999999


Q ss_pred             HHHHHHHH
Q psy12150        233 RRAITCLQ  240 (456)
Q Consensus       233 r~~~~~L~  240 (456)
                      ..+.....
T Consensus       240 ~~l~~~~~  247 (350)
T 2qen_A          240 GWLVVFGV  247 (350)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            86555443

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.32  E-value=1.3e-12  Score=136.85  Aligned_cols=206  Identities=18%  Similarity=0.160  Sum_probs=129.3

Q ss_pred             ccccccHHHHHHHHHHHhcCCCC-----------eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHH
Q psy12150         45 DDVIEQQEVVSVLKKCLSGADLP-----------HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVI  113 (456)
Q Consensus        45 ~~ivg~~~~~~~l~~~l~~~~~~-----------~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i  113 (456)
                      ..++|++.++..+.-.+.++...           |+||+||||||||++|+++++.+....+.... ..++....+. ..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~-~~~~~~l~~~-~~  372 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGK-GSTAAGLTAA-VV  372 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTCSCEECCCTT-CSTTTTSEEE-CS
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhCCCceecCCC-ccccccccce-ee
Confidence            36789999888887777666321           69999999999999999999876432111000 0111110000 00


Q ss_pred             HHHHHHHHHhhccCCCCCCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhcc-------------CcceEEEEecC
Q psy12150        114 RDKVKTFAQQTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET-------------KSTRFCLICNY  176 (456)
Q Consensus       114 ~~~l~~~~~~~~~~~~~~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-------------~~~~lIl~~~~  176 (456)
                      ...        ..+ .....++    ++..+++|||++.+.++.++.|++.|++..             ..+.+|.++|.
T Consensus       373 ~~~--------~~g-~~~~~~G~l~~A~~gil~IDEid~l~~~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp  443 (595)
T 3f9v_A          373 REK--------GTG-EYYLEAGALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNP  443 (595)
T ss_dssp             SGG--------GTS-SCSEEECHHHHHSSSEECCTTTTCCCSHHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECC
T ss_pred             ecc--------ccc-cccccCCeeEecCCCcEEeehhhhCCHhHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCC
Confidence            000        000 0000000    123499999999999999999999998632             34567888886


Q ss_pred             cc-------------cccccccCCce-EEEecCCCHHHHHHHHHHHHHHc-------------------------CCCCC
Q psy12150        177 VS-------------CIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQE-------------------------SVMCD  217 (456)
Q Consensus       177 ~~-------------kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~-------------------------~~~i~  217 (456)
                      ..             .+.+++.+|+. .+.+.+++..+...+.+.++...                         ...++
T Consensus       444 ~~G~~~~~~~~~~ni~l~~aLl~RFDl~~~~~~~~~~e~~~i~~~il~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls  523 (595)
T 3f9v_A          444 KFGRYISERPVSDNINLPPTILSRFDLIFILKDQPGEQDRELANYILDVHSGKSTKNIIDIDTLRKYIAYARKYVTPKIT  523 (595)
T ss_dssp             TTCCSCTTSCSCTTTCSCSSSGGGCSCCEEECCTTHHHHHHHHHHHHTTTCCCSSSSTTCCTTTHHHHHHHHHHHCCCCC
T ss_pred             cCCccCcccCchhccCCCHHHHhhCeEEEEeCCCCCHHHHHHHHHHHHHhhccccccCCCHHHHHHHHHHHHHhCCCCCC
Confidence            54             78889999994 55555555444334344333321                         22577


Q ss_pred             HHHHHHHHHH---------------cCCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        218 FKALETLVET---------------SGGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       218 ~~~l~~L~~~---------------s~gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      +++.+.|.+.               .++++|.+.+.+..+...+   +...|+.+||.+++.
T Consensus       524 ~ea~~~l~~~y~~lR~~~~~~~~~~~~~s~R~l~~lirla~a~A~l~~~~~V~~~dv~~Ai~  585 (595)
T 3f9v_A          524 SEAKNLITDFFVEMRKKSSETPDSPILITPRQLEALIRISEAYAKMALKAEVTREDAERAIN  585 (595)
T ss_dssp             CCTHHHHHHHHTTSSCSCCBCSSSCBCSSTTTTTHHHHHHHHHHHTTSSCCSSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhccCCCccccccHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHH
Confidence            7777777775               4678888888887664444   677899999987763

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.28  E-value=4.7e-12  Score=107.88  Aligned_cols=128  Identities=11%  Similarity=0.124  Sum_probs=84.6

Q ss_pred             cccccHHHHHHHHHHHhc--CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHh
Q psy12150         46 DVIEQQEVVSVLKKCLSG--ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQ  123 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~--~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~  123 (456)
                      +++|++..++.+.+.+..  ....+++|+||||||||++|+++++...      .++.+++..... ..    .......
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~~------~~~~~~~~~~~~-~~----~~~~~~~   73 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNGT------PWVSPARVEYLI-DM----PMELLQK   73 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTTS------CEECCSSTTHHH-HC----HHHHHHH
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC------CeEEechhhCCh-Hh----hhhHHHh
Confidence            578998888888777653  2334599999999999999999988642      577788775211 11    1122222


Q ss_pred             hccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-CcceEEEEecCc-cc----ccccccCCce--EEEecC
Q psy12150        124 TASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-KSTRFCLICNYV-SC----IIQPLTSRCS--KFRFKP  195 (456)
Q Consensus       124 ~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-~~~~lIl~~~~~-~k----l~~~l~~r~~--~i~f~~  195 (456)
                      .            +..+|||||++.+..+.+..|++++++.. ..+++|+++|.. ..    +.+.+..|..  .++++|
T Consensus        74 a------------~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn~~~~~~~~~~~~~L~~rl~~~~i~lPp  141 (143)
T 3co5_A           74 A------------EGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCSYAAGSDGISCEEKLAGLFSESVVRIPP  141 (143)
T ss_dssp             T------------TTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEEECTTTC--CHHHHHHHHSSSEEEEECC
T ss_pred             C------------CCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecCCCHHHHHhCccHHHHHHhcCcEEeCCC
Confidence            1            12399999999999999999999998753 457788888753 22    2233444433  455655


Q ss_pred             C
Q psy12150        196 L  196 (456)
Q Consensus       196 ~  196 (456)
                      +
T Consensus       142 L  142 (143)
T 3co5_A          142 L  142 (143)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.12  E-value=1.3e-09  Score=106.70  Aligned_cols=187  Identities=19%  Similarity=0.171  Sum_probs=117.4

Q ss_pred             cccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC-----cChHHHHHHHH
Q psy12150         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD-----RGIQVIRDKVK  118 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~-----~~~~~i~~~l~  118 (456)
                      .+.++|++..++.|.+ +..   +.++|+||+|+|||++++.+++.+..     .++.+++...     .....+...+.
T Consensus        12 ~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l~   82 (357)
T 2fna_A           12 RKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLLELQ   82 (357)
T ss_dssp             GGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHHHHH
T ss_pred             HHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEEchhhccccCCCHHHHHHHHH
Confidence            4578999999999999 775   57999999999999999999998643     2445554421     12222222222


Q ss_pred             HHHHh----------hcc--------CC--C--C---CCCC----------CC-CcEEEEEcCCCCccH----HHHHHHH
Q psy12150        119 TFAQQ----------TAS--------GF--N--Q---DGKP----------CP-PFKIVILDEADSMTH----AAQAALR  158 (456)
Q Consensus       119 ~~~~~----------~~~--------~~--~--~---~~~~----------~~-~~~iviIDE~d~l~~----~~~~~Ll  158 (456)
                      .....          ...        ..  .  .   ....          .. +.-+|+|||++.+..    +....|.
T Consensus        83 ~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~~l~  162 (357)
T 2fna_A           83 KEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALA  162 (357)
T ss_dssp             HHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHH
T ss_pred             HHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHHHHH
Confidence            11100          000        00  0  0   0000          00 244899999999854    2233444


Q ss_pred             HHHHhccCcceEEEEecCcc---------cccccccCCc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Q psy12150        159 RTMEKETKSTRFCLICNYVS---------CIIQPLTSRC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETS  228 (456)
Q Consensus       159 ~~le~~~~~~~lIl~~~~~~---------kl~~~l~~r~-~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s  228 (456)
                      ...+.. ..+.+|+++....         ....++..|. ..+++.+++.++..+++...+...+...++.  ..++..+
T Consensus       163 ~~~~~~-~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~--~~i~~~t  239 (357)
T 2fna_A          163 YAYDNL-KRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKDY--EVVYEKI  239 (357)
T ss_dssp             HHHHHC-TTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCCH--HHHHHHH
T ss_pred             HHHHcC-CCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCcH--HHHHHHh
Confidence            444443 3566777776432         1123355554 6899999999999999998887667666654  8899999


Q ss_pred             CCCHHHHHHHHHHH
Q psy12150        229 GGDMRRAITCLQSC  242 (456)
Q Consensus       229 ~gdlr~~~~~L~~~  242 (456)
                      +|++..+...+..+
T Consensus       240 ~G~P~~l~~~~~~~  253 (357)
T 2fna_A          240 GGIPGWLTYFGFIY  253 (357)
T ss_dssp             CSCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            99998766555443

>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=99.03  E-value=3.9e-10  Score=99.68  Aligned_cols=132  Identities=14%  Similarity=0.196  Sum_probs=78.8

Q ss_pred             hccCCCCcccccc----cHHHHHHHHHHHhcCCC---CeEEEECCCCCcHHHHHHHHHHHhc-CCccccceEEeeCCCCc
Q psy12150         37 EKYRPKTIDDVIE----QQEVVSVLKKCLSGADL---PHFLFYGPPGTGKTSTMIAACHQLF-GDMYRERILELNASDDR  108 (456)
Q Consensus        37 eky~P~~~~~ivg----~~~~~~~l~~~l~~~~~---~~~Ll~G~~G~GKT~~a~~l~~~l~-~~~~~~~~~e~n~~~~~  108 (456)
                      ++|++.+|+++++    +..+++.+++++++...   ..++|+||+|+|||+++++++..+. ....  .++.++..   
T Consensus         2 ~r~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~--~~~~~~~~---   76 (180)
T 3ec2_A            2 KRYWNANLDTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGI--RGYFFDTK---   76 (180)
T ss_dssp             CSCTTCCSSSCCCCSHHHHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCC--CCCEEEHH---
T ss_pred             chhhhCccccccCCCHHHHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCC--eEEEEEHH---
Confidence            6899999999986    45666777777765443   2399999999999999999999874 1111  23333322   


Q ss_pred             ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCC--CccHHHHHHHHHHHHhcc-CcceEEEEecCcc
Q psy12150        109 GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD--SMTHAAQAALRRTMEKET-KSTRFCLICNYVS  178 (456)
Q Consensus       109 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d--~l~~~~~~~Ll~~le~~~-~~~~lIl~~~~~~  178 (456)
                         .+.+.+............ . ....+..++|+||++  .+.....+.|.++++... ....+|+++|...
T Consensus        77 ---~~~~~~~~~~~~~~~~~~-~-~~~~~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~~~  144 (180)
T 3ec2_A           77 ---DLIFRLKHLMDEGKDTKF-L-KTVLNSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNYSL  144 (180)
T ss_dssp             ---HHHHHHHHHHHHTCCSHH-H-HHHHTCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCCCS
T ss_pred             ---HHHHHHHHHhcCchHHHH-H-HHhcCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCCCh
Confidence               111111111110000000 0 000123499999998  566767777777775432 3456777777543

>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=98.94  E-value=8.5e-10  Score=112.35  Aligned_cols=145  Identities=14%  Similarity=0.177  Sum_probs=79.9

Q ss_pred             CCCCCCCCcchhccCCCCccccc-ccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC
Q psy12150         26 GKTRNKPVPWVEKYRPKTIDDVI-EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        26 ~~~~~~~~~w~eky~P~~~~~iv-g~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      +.-+....||.++|+|.+|+++- +|..++..+..++..+. ++++|.|++|||||+++.+++..+..... ..++-+..
T Consensus         5 ~~~~~~~~~~~~~~~p~~~~~Ln~~Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l~~~~~-~~il~~a~   82 (459)
T 3upu_A            5 HHHHHHSSGLVPRGSHMTFDDLTEGQKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEALISTGE-TGIILAAP   82 (459)
T ss_dssp             ----------------CCSSCCCHHHHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHHHHTTC-CCEEEEES
T ss_pred             CCCCCccCCCccccCCCccccCCHHHHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHHHhcCC-ceEEEecC
Confidence            34456678999999999999987 68888888888888765 37999999999999999999988754322 12222222


Q ss_pred             CCCcChHHHHHHH-------HHHHHhhccCCC-------CCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceE
Q psy12150        105 SDDRGIQVIRDKV-------KTFAQQTASGFN-------QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRF  170 (456)
Q Consensus       105 ~~~~~~~~i~~~l-------~~~~~~~~~~~~-------~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~l  170 (456)
                      +. .....+.+.+       ..+.........       ........+++|||||++.+....+..|++.+.   ....+
T Consensus        83 T~-~Aa~~l~~~~~~~~~T~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiDE~~~~~~~~~~~l~~~~~---~~~~~  158 (459)
T 3upu_A           83 TH-AAKKILSKLSGKEASTIHSILKINPVTYEENVLFEQKEVPDLAKCRVLICDEVSMYDRKLFKILLSTIP---PWCTI  158 (459)
T ss_dssp             SH-HHHHHHHHHHSSCEEEHHHHHTEEEEECSSCEEEEECSCCCCSSCSEEEESCGGGCCHHHHHHHHHHSC---TTCEE
T ss_pred             cH-HHHHHHHhhhccchhhHHHHhccCcccccccchhcccccccccCCCEEEEECchhCCHHHHHHHHHhcc---CCCEE
Confidence            21 1122222221       111111000000       001111356799999999999888888887764   44567


Q ss_pred             EEEecC
Q psy12150        171 CLICNY  176 (456)
Q Consensus       171 Il~~~~  176 (456)
                      +++++.
T Consensus       159 ~~vGD~  164 (459)
T 3upu_A          159 IGIGDN  164 (459)
T ss_dssp             EEEECT
T ss_pred             EEECCH
Confidence            777764

>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=98.89  E-value=8e-09  Score=96.11  Aligned_cols=136  Identities=19%  Similarity=0.251  Sum_probs=88.1

Q ss_pred             HHHHHHHHHhcC-CCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCC
Q psy12150         53 VVSVLKKCLSGA-DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ  130 (456)
Q Consensus        53 ~~~~l~~~l~~~-~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~  130 (456)
                      ....+..|+++. ...+ ++||||||||||+++.++++.+.-      +..++.+..           .+   ...    
T Consensus        89 ~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~~l------~G~vn~~~~-----------~f---~l~----  144 (267)
T 1u0j_A           89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVPF------YGCVNWTNE-----------NF---PFN----  144 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSSC------EEECCTTCS-----------SC---TTG----
T ss_pred             HHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhhcc------cceeecccc-----------cc---ccc----
Confidence            345677888775 3234 999999999999999999997421      112222210           00   000    


Q ss_pred             CCCCCCCcEEEEEcCCCCccHHHHHHHHHHHH--------hcc-----CcceEEEEecC-c----------ccccccccC
Q psy12150        131 DGKPCPPFKIVILDEADSMTHAAQAALRRTME--------KET-----KSTRFCLICNY-V----------SCIIQPLTS  186 (456)
Q Consensus       131 ~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le--------~~~-----~~~~lIl~~~~-~----------~kl~~~l~~  186 (456)
                         +..++++++.||+. +..+.++.+.++++        +..     ..+.+|+++|. .          ....++|++
T Consensus       145 ---~~~~k~i~l~Ee~~-~~~d~~~~lr~i~~G~~~~id~K~k~~~~v~~tPvIitsN~~i~~~~~g~~~s~~~~~~L~s  220 (267)
T 1u0j_A          145 ---DCVDKMVIWWEEGK-MTAKVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQD  220 (267)
T ss_dssp             ---GGSSCSEEEECSCC-EETTTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHT
T ss_pred             ---cccccEEEEecccc-chhHHHHHHHHHhCCCcEEEecCcCCcccccCCCEEEEecCCcccccccCccchhhhHHHhh
Confidence               01134466666665 44556667777776        322     45667888885 2          245678999


Q ss_pred             CceEEEec--------CCCHHHHHHHHHHHHHHcCCCCC
Q psy12150        187 RCSKFRFK--------PLAENTMLTRLQYICEQESVMCD  217 (456)
Q Consensus       187 r~~~i~f~--------~~~~~el~~~l~~~~~~~~~~i~  217 (456)
                      |+..+.|.        +++.+++..++.. ++.++.+++
T Consensus       221 R~~~f~F~~~~p~~~~~lt~~~~~~f~~w-~~~~~~~~~  258 (267)
T 1u0j_A          221 RMFKFELTRRLDHDFGKVTKQEVKDFFRW-AKDHVVEVE  258 (267)
T ss_dssp             TEEEEECCSCCCTTSCCCCHHHHHHHHHH-HHHTCCCCC
T ss_pred             hEEEEECCCcCCcccCCCCHHHHHHHHHH-HHHcCCCCc
Confidence            99999998        8999999999984 466666554

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.80  E-value=7.6e-09  Score=93.02  Aligned_cols=69  Identities=14%  Similarity=0.160  Sum_probs=50.5

Q ss_pred             cchhccCCCCcccccccH----HHHHHHHHHHhcCC----CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC
Q psy12150         34 PWVEKYRPKTIDDVIEQQ----EVVSVLKKCLSGAD----LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        34 ~w~eky~P~~~~~ivg~~----~~~~~l~~~l~~~~----~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      .+..+|++.+|+++++.+    .+++.+..++....    ..+++|+||+|+|||++++++++.+.....  .++.+++
T Consensus        14 ~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~--~~~~~~~   90 (202)
T 2w58_A           14 FMPREILRASLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNV--SSLIVYV   90 (202)
T ss_dssp             SSCGGGGCCCTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTC--CEEEEEH
T ss_pred             CCCHHHHcCCHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCC--eEEEEEh
Confidence            345678889999999744    35566777776542    146999999999999999999998865432  4444444

>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=98.77  E-value=2.8e-07  Score=91.85  Aligned_cols=201  Identities=16%  Similarity=0.074  Sum_probs=123.6

Q ss_pred             cccccHHHHHHHHHHHhcCC-----CCeEEEECCCCCcHHHHHHHH-HHHhcCCccccceEEeeCCCCcChHHHHHHHHH
Q psy12150         46 DVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTSTMIAA-CHQLFGDMYRERILELNASDDRGIQVIRDKVKT  119 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~~-----~~~~Ll~G~~G~GKT~~a~~l-~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~  119 (456)
                      .++|++.++..+.-.+-+|.     -.|+||.|+||+ ||.+++++ ++.+ .   +..+.....+.   ...+...+. 
T Consensus       214 pI~G~e~vK~aLll~L~GG~~k~rgdihVLL~G~PGt-KS~Lar~i~~~i~-p---R~~ft~g~~ss---~~gLt~s~r-  284 (506)
T 3f8t_A          214 PLPGAEEVGKMLALQLFSCVGKNSERLHVLLAGYPVV-CSEILHHVLDHLA-P---RGVYVDLRRTE---LTDLTAVLK-  284 (506)
T ss_dssp             CSTTCHHHHHHHHHHHTTCCSSGGGCCCEEEESCHHH-HHHHHHHHHHHTC-S---SEEEEEGGGCC---HHHHSEEEE-
T ss_pred             ccCCCHHHHHHHHHHHcCCccccCCceeEEEECCCCh-HHHHHHHHHHHhC-C---CeEEecCCCCC---ccCceEEEE-
Confidence            37899998888877777663     126999999999 99999999 6643 1   11121111111   000000000 


Q ss_pred             HHHhhccCCCCCCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhc---------cCcceEEEEecCcc--------
Q psy12150        120 FAQQTASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKE---------TKSTRFCLICNYVS--------  178 (456)
Q Consensus       120 ~~~~~~~~~~~~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~---------~~~~~lIl~~~~~~--------  178 (456)
                         .. .+  ...+++    ++..++++||++.+.+..+.+|++.|++.         +..+.+|.++|...        
T Consensus       285 ---~~-tG--~~~~~G~l~LAdgGvl~lDEIn~~~~~~qsaLlEaMEe~~VtI~G~~lparf~VIAA~NP~~~yd~~~s~  358 (506)
T 3f8t_A          285 ---ED-RG--WALRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVDGIALNARCAVLAAINPGEQWPSDPPI  358 (506)
T ss_dssp             ---ES-SS--EEEEECHHHHTTTSEEEEECCTTCCHHHHHHHHHHHHHSEEEETTEEEECCCEEEEEECCCC--CCSCGG
T ss_pred             ---cC-CC--cccCCCeeEEcCCCeeehHhhhhCCHHHHHHHHHHHhCCcEEECCEEcCCCeEEEEEeCcccccCCCCCc
Confidence               00 00  000000    34559999999999999999999999964         34566777777543        


Q ss_pred             ---cccccccCCceEEEe---------------cCCCHHHHHHHHHHHH-HHcCCCCCHHHHHHHHHH------------
Q psy12150        179 ---CIIQPLTSRCSKFRF---------------KPLAENTMLTRLQYIC-EQESVMCDFKALETLVET------------  227 (456)
Q Consensus       179 ---kl~~~l~~r~~~i~f---------------~~~~~~el~~~l~~~~-~~~~~~i~~~~l~~L~~~------------  227 (456)
                         .+.+++.+|+..+..               ..++.+++++++...- ..-...+++++.+.|.+.            
T Consensus       359 ~~~~Lp~alLDRFDLi~i~~d~pd~e~d~e~~~~~ls~e~L~~yi~~ar~~~~~p~ls~ea~~yI~~~y~~tR~~~~~~~  438 (506)
T 3f8t_A          359 ARIDLDQDFLSHFDLIAFLGVDPRPGEPEEQDTEVPSYTLLRRYLLYAIREHPAPELTEEARKRLEHWYETRREEVEERL  438 (506)
T ss_dssp             GGCCSCHHHHTTCSEEEETTC--------------CCHHHHHHHHHHHHHHCSCCEECHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCCChHHhhheeeEEEecCCCChhHhhcccCCCCCHHHHHHHHHHHHhcCCCceeCHHHHHHHHHHHHHHhcCccccc
Confidence               566788899842221               2345566766665443 123567899888776642            


Q ss_pred             ------cCCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        228 ------SGGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       228 ------s~gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                            .+-.+|.+...+.-+.+.|   +...|+.+||.+++.
T Consensus       439 ~~~~~~~giSpR~leaLiRlA~A~A~L~gR~~V~~eDV~~Ai~  481 (506)
T 3f8t_A          439 GMGLPTLPVTRRQLESVERLAKAHARMRLSDDVEPEDVDIAAE  481 (506)
T ss_dssp             HTTCCCCCCCHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred             ccccccccccHHHHHHHHHHHHHHHHHcCcCCCCHHHHHHHHH
Confidence                  1235677666665443333   677899999987764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.73  E-value=3e-08  Score=88.14  Aligned_cols=117  Identities=22%  Similarity=0.321  Sum_probs=72.0

Q ss_pred             HHHHHHHHHHhcCCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEe-eCCCCcChHHHHHHHHHHHHhhccCCC
Q psy12150         52 EVVSVLKKCLSGADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL-NASDDRGIQVIRDKVKTFAQQTASGFN  129 (456)
Q Consensus        52 ~~~~~l~~~l~~~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~-n~~~~~~~~~i~~~l~~~~~~~~~~~~  129 (456)
                      ..+..++.++++-... +++||||||||||+++.++++.+.+.     ++.+ |......             ....   
T Consensus        43 ~f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~g~-----i~~fans~s~f~-------------l~~l---  101 (212)
T 1tue_A           43 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQGA-----VISFVNSTSHFW-------------LEPL---  101 (212)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTCE-----ECCCCCSSSCGG-------------GGGG---
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCCC-----eeeEEeccchhh-------------hccc---
Confidence            4467778888752222 49999999999999999999988542     2211 1111000             0000   


Q ss_pred             CCCCCCCCcEEEEEcCCCCccHHH-HHHHHHHHHhcc-------------CcceEEEEecCc---ccccccccCCceEEE
Q psy12150        130 QDGKPCPPFKIVILDEADSMTHAA-QAALRRTMEKET-------------KSTRFCLICNYV---SCIIQPLTSRCSKFR  192 (456)
Q Consensus       130 ~~~~~~~~~~iviIDE~d~l~~~~-~~~Ll~~le~~~-------------~~~~lIl~~~~~---~kl~~~l~~r~~~i~  192 (456)
                            .+.+++++||++.-..+. ...+..+++..+             ..+.+|+++|..   ....+.|.+|+..+.
T Consensus       102 ------~~~kIiiLDEad~~~~~~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN~~~~~~~~~~~L~SRi~~f~  175 (212)
T 1tue_A          102 ------TDTKVAMLDDATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLESRITVFE  175 (212)
T ss_dssp             ------TTCSSEEEEEECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHTSCEEEE
T ss_pred             ------CCCCEEEEECCCchhHHHHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecCCCcccccchhhhhhhEEEEE
Confidence                  144599999998432222 234455555431             124677888853   344577999999988


Q ss_pred             ecC
Q psy12150        193 FKP  195 (456)
Q Consensus       193 f~~  195 (456)
                      |+.
T Consensus       176 F~~  178 (212)
T 1tue_A          176 FPN  178 (212)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            874

>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=98.71  E-value=6.8e-08  Score=114.94  Aligned_cols=149  Identities=17%  Similarity=0.169  Sum_probs=101.2

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCC--
Q psy12150         57 LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKP--  134 (456)
Q Consensus        57 l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~--  134 (456)
                      +..++..+  .++||+||||||||++++.+....    ....+..++.+.......+...+...........+....|  
T Consensus      1260 l~~~l~~~--~~vLL~GPpGtGKT~la~~~l~~~----~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~~ 1333 (2695)
T 4akg_A         1260 FYDLLNSK--RGIILCGPPGSGKTMIMNNALRNS----SLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKS 1333 (2695)
T ss_dssp             HHHHHHHT--CEEEEECSTTSSHHHHHHHHHHSC----SSCEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEBS
T ss_pred             HHHHHHCC--CeEEEECCCCCCHHHHHHHHHhcC----CCCceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccCCC
Confidence            45556655  369999999999999997776653    2236777888887777666666554322111000000001  


Q ss_pred             CCCcEEEEEcCCCCccH------HHHHHHHHHHHhcc------------CcceEEEEecCc-----ccccccccCCceEE
Q psy12150        135 CPPFKIVILDEADSMTH------AAQAALRRTMEKET------------KSTRFCLICNYV-----SCIIQPLTSRCSKF  191 (456)
Q Consensus       135 ~~~~~iviIDE~d~l~~------~~~~~Ll~~le~~~------------~~~~lIl~~~~~-----~kl~~~l~~r~~~i  191 (456)
                      ...+-|+||||++....      ...+.|++.++...            ..+.+|.++|++     ..+.+++.+|+..+
T Consensus      1334 ~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~vi 1413 (2695)
T 4akg_A         1334 DIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAIL 1413 (2695)
T ss_dssp             SSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTEEEE
T ss_pred             CCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhheeeEE
Confidence            12344999999876432      25677788887421            135677788876     46889999999999


Q ss_pred             EecCCCHHHHHHHHHHHHHH
Q psy12150        192 RFKPLAENTMLTRLQYICEQ  211 (456)
Q Consensus       192 ~f~~~~~~el~~~l~~~~~~  211 (456)
                      .++.|+.+++..++..++..
T Consensus      1414 ~i~~P~~~~l~~I~~~il~~ 1433 (2695)
T 4akg_A         1414 YLGYPSGKSLSQIYEIYYKA 1433 (2695)
T ss_dssp             ECCCCTTTHHHHHHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHHHHHH
Confidence            99999999999999988764

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.68  E-value=3.1e-08  Score=84.63  Aligned_cols=98  Identities=16%  Similarity=0.165  Sum_probs=64.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD  147 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d  147 (456)
                      .++|+||+|+|||+++++++..+....  ...+.++..+....        .+     ..         +.+++||||++
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~~~~~g--~~~~~~~~~~~~~~--------~~-----~~---------~~~lLilDE~~   93 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQALEAG--KNAAYIDAASMPLT--------DA-----AF---------EAEYLAVDQVE   93 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHHHHTTT--CCEEEEETTTSCCC--------GG-----GG---------GCSEEEEESTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcC--CcEEEEcHHHhhHH--------HH-----Hh---------CCCEEEEeCcc
Confidence            499999999999999999999875422  24667776654332        00     00         22399999999


Q ss_pred             CccHHHHHHHHHHHHhcc--CcceEEEEecCc-cc--ccccccCCce
Q psy12150        148 SMTHAAQAALRRTMEKET--KSTRFCLICNYV-SC--IIQPLTSRCS  189 (456)
Q Consensus       148 ~l~~~~~~~Ll~~le~~~--~~~~lIl~~~~~-~k--l~~~l~~r~~  189 (456)
                      .+....++.|..+++...  ..+++|++++.. ..  ..+.+.+|+.
T Consensus        94 ~~~~~~~~~l~~li~~~~~~g~~~iiits~~~p~~l~~~~~L~SRl~  140 (149)
T 2kjq_A           94 KLGNEEQALLFSIFNRFRNSGKGFLLLGSEYTPQQLVIREDLRTRMA  140 (149)
T ss_dssp             CCCSHHHHHHHHHHHHHHHHTCCEEEEEESSCTTTSSCCHHHHHHGG
T ss_pred             ccChHHHHHHHHHHHHHHHcCCcEEEEECCCCHHHccccHHHHHHHh
Confidence            988766777777765422  123366677743 21  1267777764

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.60  E-value=2.4e-08  Score=95.98  Aligned_cols=69  Identities=20%  Similarity=0.241  Sum_probs=49.0

Q ss_pred             cchhccCCCCccccccc----HHHHHHHHHHHhcCC---CCeEEEECCCCCcHHHHHHHHHHHhc-CCccccceEEeeC
Q psy12150         34 PWVEKYRPKTIDDVIEQ----QEVVSVLKKCLSGAD---LPHFLFYGPPGTGKTSTMIAACHQLF-GDMYRERILELNA  104 (456)
Q Consensus        34 ~w~eky~P~~~~~ivg~----~~~~~~l~~~l~~~~---~~~~Ll~G~~G~GKT~~a~~l~~~l~-~~~~~~~~~e~n~  104 (456)
                      .+...+++.+|+++++.    ..++..+..++....   ..+++|+||||+|||+++.++++.+. ....  .+..+++
T Consensus       113 ~l~~~~~~~tfd~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~--~v~~~~~  189 (308)
T 2qgz_A          113 SLPKSYRHIHLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGV--STTLLHF  189 (308)
T ss_dssp             SSCGGGGSCCGGGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCC--CEEEEEH
T ss_pred             CCCHHHHhCCHhhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCC--cEEEEEH
Confidence            34456677899999963    335566777887532   34599999999999999999999876 4322  3444443

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=98.41  E-value=5.6e-06  Score=86.75  Aligned_cols=190  Identities=11%  Similarity=0.075  Sum_probs=103.8

Q ss_pred             CCCCcccccccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHhc--CCccccceEEeeCCCCcChHHHHH
Q psy12150         40 RPKTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLF--GDMYRERILELNASDDRGIQVIRD  115 (456)
Q Consensus        40 ~P~~~~~ivg~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l~--~~~~~~~~~e~n~~~~~~~~~i~~  115 (456)
                      .|.....++|++..++.|.+.+...  ..+.+.|+|++|+|||+++..+++...  ...+...+..++.+.. ....+..
T Consensus       119 ~P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~  197 (591)
T 1z6t_A          119 VPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLM  197 (591)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHH
T ss_pred             CCCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHH
Confidence            4666678999999999999999743  233499999999999999999875321  1111112233332221 1122222


Q ss_pred             HHHHHHHhhcc-CCCCCCCCC----------------CCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcc
Q psy12150        116 KVKTFAQQTAS-GFNQDGKPC----------------PPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (456)
Q Consensus       116 ~l~~~~~~~~~-~~~~~~~~~----------------~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~  178 (456)
                      .+..+...... .......+.                ..+-+||+||++..  .    .   ++..+..+.+|+++....
T Consensus       198 ~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~--~----~---l~~l~~~~~ilvTsR~~~  268 (591)
T 1z6t_A          198 KLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS--W----V---LKAFDSQCQILLTTRDKS  268 (591)
T ss_dssp             HHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCH--H----H---HHTTCSSCEEEEEESCGG
T ss_pred             HHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCH--H----H---HHHhcCCCeEEEECCCcH
Confidence            22221111100 000000000                02339999999762  1    1   222245566776765432


Q ss_pred             cccccccCCceEEE-ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q psy12150        179 CIIQPLTSRCSKFR-FKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQS  241 (456)
Q Consensus       179 kl~~~l~~r~~~i~-f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~  241 (456)
                       ...........+. ..+++.++..+++...+.... .-.++....|++.++|.+-.+......
T Consensus       269 -~~~~~~~~~~~v~~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~i~~~~~G~PLal~~~a~~  330 (591)
T 1z6t_A          269 -VTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKK-ADLPEQAHSIIKECKGSPLVVSLIGAL  330 (591)
T ss_dssp             -GGTTCCSCEEEEECCSSCCHHHHHHHHHHHHTSCG-GGSCTHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             -HHHhcCCCceEeecCCCCCHHHHHHHHHHHhCCCc-ccccHHHHHHHHHhCCCcHHHHHHHHH
Confidence             1111112222222 258999999999988764321 112457789999999998765544443

>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=98.32  E-value=2.6e-05  Score=93.17  Aligned_cols=169  Identities=20%  Similarity=0.192  Sum_probs=115.7

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCC
Q psy12150         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQD  131 (456)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~  131 (456)
                      .....+..++..+.  +.++.||+|||||++++.+++.++.     .++.+||++......+...+..+...+       
T Consensus       633 r~~~tl~~Al~~~~--~~~l~GpaGtGKTe~vk~LA~~lg~-----~~v~~nc~e~ld~~~lg~~~~g~~~~G-------  698 (2695)
T 4akg_A          633 IGFATLTDSLHQKY--GGCFFGPAGTGKTETVKAFGQNLGR-----VVVVFNCDDSFDYQVLSRLLVGITQIG-------  698 (2695)
T ss_dssp             HHHHHHHHHHHTTC--EEEEECCTTSCHHHHHHHHHHTTTC-----CCEEEETTSSCCHHHHHHHHHHHHHHT-------
T ss_pred             HHHHHHHHHHHhCC--CCcccCCCCCCcHHHHHHHHHHhCC-----cEEEEECCCCCChhHhhHHHHHHHhcC-------
Confidence            34455666666543  4789999999999999999999865     578889999888877766666655442       


Q ss_pred             CCCCCCcEEEEEcCCCCccHHHHHHHH-------HHHHhc-------------cCcceEEEEec----CcccccccccCC
Q psy12150        132 GKPCPPFKIVILDEADSMTHAAQAALR-------RTMEKE-------------TKSTRFCLICN----YVSCIIQPLTSR  187 (456)
Q Consensus       132 ~~~~~~~~iviIDE~d~l~~~~~~~Ll-------~~le~~-------------~~~~~lIl~~~----~~~kl~~~l~~r  187 (456)
                             ..+++||++.+..+.+..+.       ..+.+.             .+.+.++++.|    .+..+.+++++|
T Consensus       699 -------aw~~~DE~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk~~  771 (2695)
T 4akg_A          699 -------AWGCFDEFNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKS  771 (2695)
T ss_dssp             -------CEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHHTT
T ss_pred             -------CEeeehhhhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHHhh
Confidence                   18999999999998776663       333221             12344555556    346788899999


Q ss_pred             ceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH-------Hc------CCCHHHHHHHHHHHHH
Q psy12150        188 CSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVE-------TS------GGDMRRAITCLQSCAR  244 (456)
Q Consensus       188 ~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~-------~s------~gdlr~~~~~L~~~~~  244 (456)
                      +..+.+..|+.+.+.+++...   .|....+.....++.       ..      +..+|.+...|..+..
T Consensus       772 Fr~v~m~~Pd~~~i~ei~l~s---~Gf~~a~~la~kiv~~~~l~~e~ls~q~hydfglRalksvL~~ag~  838 (2695)
T 4akg_A          772 FREFSMKSPQSGTIAEMILQI---MGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSP  838 (2695)
T ss_dssp             EEEEECCCCCHHHHHHHHHHH---HHCSSHHHHHHHHHHHHHHHHHHSCCCTTCCCSHHHHHHHHHHHHH
T ss_pred             eEEEEeeCCCHHHHHHHHHHh---cCCCchHHHHHHHHHHHHHHHHHhCcCCcccccHHHHHHHHHHHHH
Confidence            999999999998888875432   344444444333322       11      2367888777765543

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.29  E-value=1.7e-05  Score=95.51  Aligned_cols=184  Identities=15%  Similarity=0.146  Sum_probs=116.2

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCC-CCCCCC
Q psy12150         56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGF-NQDGKP  134 (456)
Q Consensus        56 ~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~-~~~~~~  134 (456)
                      -+..++..+.  ++||+||+|||||.++..+...+.    ...++.+|.+.......+...+........... +....|
T Consensus      1296 ll~~ll~~~~--pvLL~GptGtGKT~li~~~L~~l~----~~~~~~infS~~Tta~~l~~~~e~~~e~~~~~~~G~~~~p 1369 (3245)
T 3vkg_A         1296 VLHAWLSEHR--PLILCGPPGSGKTMTLTSTLRAFP----DFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETVLRP 1369 (3245)
T ss_dssp             HHHHHHHTTC--CCEEESSTTSSHHHHHHHHGGGCT----TEEEEEECCCTTCCHHHHHHHHHHHEEEEECTTSCEEEEE
T ss_pred             HHHHHHHCCC--cEEEECCCCCCHHHHHHHHHHhCC----CCceEEEEeeCCCCHHHHHHHHhhcceEEeccCCCcccCC
Confidence            3455566553  589999999999988876665542    235678899888887777766654322111100 000112


Q ss_pred             C--CCcEEEEEcCCCCccH------HHHHHHHHHHHhcc------------CcceEEEEecCc-----ccccccccCCce
Q psy12150        135 C--PPFKIVILDEADSMTH------AAQAALRRTMEKET------------KSTRFCLICNYV-----SCIIQPLTSRCS  189 (456)
Q Consensus       135 ~--~~~~iviIDE~d~l~~------~~~~~Ll~~le~~~------------~~~~lIl~~~~~-----~kl~~~l~~r~~  189 (456)
                      .  +.+-|+||||++.-..      ...+.|+++++...            ..+.+|.++|++     ..+.+++.+|+.
T Consensus      1370 ~~~Gk~~VlFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r~F~ 1449 (3245)
T 3vkg_A         1370 TQLGKWLVVFCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLRHAP 1449 (3245)
T ss_dssp             SSTTCEEEEEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHTTCC
T ss_pred             CcCCceEEEEecccCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHhhce
Confidence            1  2345889999976543      25677778887421            245577777754     457888999999


Q ss_pred             EEEecCCCHHHHHHHHHHHHHHcC------CCCCHHHHHHHHHH---------------cCCCHHHHHHHHHHHHHh
Q psy12150        190 KFRFKPLAENTMLTRLQYICEQES------VMCDFKALETLVET---------------SGGDMRRAITCLQSCARL  245 (456)
Q Consensus       190 ~i~f~~~~~~el~~~l~~~~~~~~------~~i~~~~l~~L~~~---------------s~gdlr~~~~~L~~~~~~  245 (456)
                      .+.++.|+.+++..+...++..--      ..+.+...+..++.               .--|+|.+.+.++-+..+
T Consensus      1450 vi~i~~ps~esL~~If~til~~~l~~~p~l~~~~~~lv~ati~ly~~v~~~~lp~~k~HY~FnLRDLsrv~qGll~~ 1526 (3245)
T 3vkg_A         1450 ILLVDFPSTSSLTQIYGTFNRALMKLLPNLRSFADNLTDAMVEFYSESQKRFTPDIQAHYIYSPRELSRWDRALLEA 1526 (3245)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHTTSCGGGTTSHHHHHHHHHHHHHHHHHHSCTTTSTTCCCCHHHHHHHHHHHHHH
T ss_pred             EEEeCCCCHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCCccccHHHHHHHHHHHHHh
Confidence            999999999999999776654311      11223333332221               123889888888876654

>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=98.17  E-value=9.5e-05  Score=83.91  Aligned_cols=190  Identities=11%  Similarity=0.089  Sum_probs=108.6

Q ss_pred             ccCCCCcccccccHHHHHHHHHHHhcC--CCCeEEEECCCCCcHHHHHHHHHHHh--cCCccccceEEeeCCCCcChHHH
Q psy12150         38 KYRPKTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQL--FGDMYRERILELNASDDRGIQVI  113 (456)
Q Consensus        38 ky~P~~~~~ivg~~~~~~~l~~~l~~~--~~~~~Ll~G~~G~GKT~~a~~l~~~l--~~~~~~~~~~e~n~~~~~~~~~i  113 (456)
                      .--|.....++|++..++.|.+.+...  ....+.|+|+.|+|||++|+.+++..  ....+...++-++.+.... ...
T Consensus       117 ~~~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~-~~~  195 (1249)
T 3sfz_A          117 GGVPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDK-SGL  195 (1249)
T ss_dssp             TTCCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCH-HHH
T ss_pred             CCCCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCc-hHH
Confidence            334666678999999999999999543  23338999999999999999887652  1222222344444443221 111


Q ss_pred             HHHHHHHHHhhccCCC-CCCCC--------------C--CCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        114 RDKVKTFAQQTASGFN-QDGKP--------------C--PPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       114 ~~~l~~~~~~~~~~~~-~~~~~--------------~--~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      ...+............ ....+              .  ..+-+||+||++..  .       .++...+...+|+++..
T Consensus       196 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~--~-------~~~~~~~~~~ilvTtR~  266 (1249)
T 3sfz_A          196 LMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP--W-------VLKAFDNQCQILLTTRD  266 (1249)
T ss_dssp             HHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCH--H-------HHTTTCSSCEEEEEESS
T ss_pred             HHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCH--H-------HHHhhcCCCEEEEEcCC
Confidence            1122222111100000 00000              0  12349999999863  1       12223456677777654


Q ss_pred             cccccccccCCceEEEecC-CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q psy12150        177 VSCIIQPLTSRCSKFRFKP-LAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL  239 (456)
Q Consensus       177 ~~kl~~~l~~r~~~i~f~~-~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L  239 (456)
                      .. +..........+...+ ++.++..+.+...+...... .++....|++.++|-+-.+...-
T Consensus       267 ~~-~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~-~~~~~~~i~~~~~glPLal~~~~  328 (1249)
T 3sfz_A          267 KS-VTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKED-LPAEAHSIIKECKGSPLVVSLIG  328 (1249)
T ss_dssp             TT-TTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSCSTT-CCTHHHHHHHHTTTCHHHHHHHH
T ss_pred             HH-HHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCChhh-CcHHHHHHHHHhCCCHHHHHHHH
Confidence            32 2222223334677775 99999999988777433222 34567889999999876544333

>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=98.16  E-value=5.1e-05  Score=78.75  Aligned_cols=180  Identities=17%  Similarity=0.147  Sum_probs=100.5

Q ss_pred             cccHHHHHHHHHHHhcC---CCCeEEEECCCCCcHHHHHHHHHH---HhcCCccccceEEeeCCCCc--ChHHHH-HHHH
Q psy12150         48 IEQQEVVSVLKKCLSGA---DLPHFLFYGPPGTGKTSTMIAACH---QLFGDMYRERILELNASDDR--GIQVIR-DKVK  118 (456)
Q Consensus        48 vg~~~~~~~l~~~l~~~---~~~~~Ll~G~~G~GKT~~a~~l~~---~l~~~~~~~~~~e~n~~~~~--~~~~i~-~~l~  118 (456)
                      +|++..++.|.+++..+   ....+.|+|+.|+|||++|+.+++   .-....+. ..+-++.+...  +...+. ..+.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~~~il~  209 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYD-SIVWLKDSGTAPKSTFDLFTDILL  209 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBS-EEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCC-cEEEEEECCCCCCCHHHHHHHHHH
Confidence            49999999999998654   233399999999999999999997   22222222 23334444432  222222 2222


Q ss_pred             HHHHhhc-cCCCC-CCC------------CCCC-cEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCccccccc
Q psy12150        119 TFAQQTA-SGFNQ-DGK------------PCPP-FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQP  183 (456)
Q Consensus       119 ~~~~~~~-~~~~~-~~~------------~~~~-~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~  183 (456)
                      .+..... ..... ...            -... +-+||+|+++....  . .+.    .. ....+|+|+... .+...
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~--~-~~~----~~-~gs~ilvTTR~~-~v~~~  280 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEET--I-RWA----QE-LRLRCLVTTRDV-EISNA  280 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHH--H-HHH----HH-TTCEEEEEESBG-GGGGG
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchh--h-ccc----cc-CCCEEEEEcCCH-HHHHH
Confidence            2211100 00000 000            0022 55999999987421  1 111    11 445666666542 22222


Q ss_pred             ccCCceEEEecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHH
Q psy12150        184 LTSRCSKFRFKPLAENTMLTRLQYICEQESV-MCDFKALETLVETSGGDMRRAIT  237 (456)
Q Consensus       184 l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~-~i~~~~l~~L~~~s~gdlr~~~~  237 (456)
                      .......+++.+++.++..+++...+..... .-.++....|++.++|.+-.+..
T Consensus       281 ~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~  335 (549)
T 2a5y_B          281 ASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMM  335 (549)
T ss_dssp             CCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHH
Confidence            2112246899999999999988877432211 11234677899999998865543

>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=97.96  E-value=4.6e-05  Score=66.80  Aligned_cols=68  Identities=13%  Similarity=0.232  Sum_probs=45.6

Q ss_pred             cEEEEEcCCC---CccHHHHHHHHHHHHhccCcceEEEEec--CcccccccccCC--ceEEEecCCCHHHHHHHHHH
Q psy12150        138 FKIVILDEAD---SMTHAAQAALRRTMEKETKSTRFCLICN--YVSCIIQPLTSR--CSKFRFKPLAENTMLTRLQY  207 (456)
Q Consensus       138 ~~iviIDE~d---~l~~~~~~~Ll~~le~~~~~~~lIl~~~--~~~kl~~~l~~r--~~~i~f~~~~~~el~~~l~~  207 (456)
                      .+++++||++   .+.....+.+.+++++.  ...+|+++.  ....+...+.+|  +..+++.+.+.+++...+..
T Consensus       100 p~llilDEigp~~~ld~~~~~~l~~~l~~~--~~~~i~~~H~~h~~~~~~~i~~r~~~~i~~~~~~~r~~~~~~l~~  174 (178)
T 1ye8_A          100 RKVIIIDEIGKMELFSKKFRDLVRQIMHDP--NVNVVATIPIRDVHPLVKEIRRLPGAVLIELTPENRDVILEDILS  174 (178)
T ss_dssp             TCEEEECCCSTTGGGCHHHHHHHHHHHTCT--TSEEEEECCSSCCSHHHHHHHTCTTCEEEECCTTTTTTHHHHHHH
T ss_pred             CCEEEEeCCCCcccCCHHHHHHHHHHHhcC--CCeEEEEEccCCCchHHHHHHhcCCcEEEEecCcCHHHHHHHHHH
Confidence            3499999953   45566788888888873  332444553  334556667777  77899988887776665543

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=97.88  E-value=7.7e-06  Score=73.11  Aligned_cols=57  Identities=16%  Similarity=0.193  Sum_probs=37.9

Q ss_pred             EEEEEcCCCCccH---HHH--HHHHHHHHhcc-CcceEEEEecCcccccccccCCce-EEEecC
Q psy12150        139 KIVILDEADSMTH---AAQ--AALRRTMEKET-KSTRFCLICNYVSCIIQPLTSRCS-KFRFKP  195 (456)
Q Consensus       139 ~iviIDE~d~l~~---~~~--~~Ll~~le~~~-~~~~lIl~~~~~~kl~~~l~~r~~-~i~f~~  195 (456)
                      .+|||||++.+.+   +..  ..++..++... ....+|++++.+..+..+++.|+. .+++.+
T Consensus        89 ~vliIDEAq~l~~~~~~~~e~~rll~~l~~~r~~~~~iil~tq~~~~l~~~lr~ri~~~~~l~~  152 (199)
T 2r2a_A           89 SIVIVDEAQDVWPARSAGSKIPENVQWLNTHRHQGIDIFVLTQGPKLLDQNLRTLVRKHYHIAS  152 (199)
T ss_dssp             CEEEETTGGGTSBCCCTTCCCCHHHHGGGGTTTTTCEEEEEESCGGGBCHHHHTTEEEEEEEEE
T ss_pred             eEEEEEChhhhccCccccchhHHHHHHHHhcCcCCeEEEEECCCHHHHhHHHHHHhheEEEEcC
Confidence            3999999999832   111  12344444332 345678888888888888998876 666665

>1jql_B DNA polymerase III, delta subunit; processivity clamp, clamp loader, DNA replication, AAA+ ATPase, transferase; HET: DNA; 2.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.82  E-value=5.5e-05  Score=63.49  Aligned_cols=123  Identities=9%  Similarity=-0.004  Sum_probs=77.8

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCc-cccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCC
Q psy12150         57 LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPC  135 (456)
Q Consensus        57 l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~  135 (456)
                      +.+.++++-.|.|+|||++-......+.++.+.+.... ...+++.+++     ..+..+.+......+.++        
T Consensus         9 l~~~l~~~~~pvyll~G~E~~l~~~~~~~i~~~~~~~~~~e~~~~~~~~-----~~~~~~l~~~~~s~slF~--------   75 (140)
T 1jql_B            9 LRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP-----NTDWNAIFSLCQAMSLFA--------   75 (140)
T ss_dssp             HHHHHHHCCCSEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEECCCCST-----TCCHHHHHHHHHCCCTTC--------
T ss_pred             HHHHHhccCCceEEEEcCcHHHHHHHHHHHHHHHHHCCCcceeEEEecC-----CCCHHHHHHHHhcCCCCC--------
Confidence            34455544334499999997777777777776654321 1112333333     122334444444444443        


Q ss_pred             CCcEEEEEcCCCC-ccHHHHHHHHHHHHhccCcceEEEEecCc------ccccccccCCceEEEe
Q psy12150        136 PPFKIVILDEADS-MTHAAQAALRRTMEKETKSTRFCLICNYV------SCIIQPLTSRCSKFRF  193 (456)
Q Consensus       136 ~~~~iviIDE~d~-l~~~~~~~Ll~~le~~~~~~~lIl~~~~~------~kl~~~l~~r~~~i~f  193 (456)
                       ++++|+|.+++. +..+..+.|..|++++++.+++|++....      .++.+++.+.+..++|
T Consensus        76 -~rrlV~v~~~~~~~~~~~~~~L~~yl~~p~~~~~lvi~~~kld~~~~~~k~~k~l~k~g~~v~~  139 (140)
T 1jql_B           76 -SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTC  139 (140)
T ss_dssp             -CCEEEEEECCTTCSCTTHHHHHHHHHHHCCSSCCEEEECSSCCTTGGGSHHHHHHGGGCEEEEC
T ss_pred             -CCEEEEEECCCCCCChHHHHHHHHHHhcCCCCEEEEEEeCCcChhHHhhHHHHHHHhCeEEEEe
Confidence             889999999765 55667788999999999899988887431      3566777676666654

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=97.76  E-value=0.00053  Score=74.85  Aligned_cols=153  Identities=13%  Similarity=0.151  Sum_probs=81.6

Q ss_pred             ccccHHHHHHHHHHHhcC-CCCeEEEECCCCCcHHHHHHHHHHHh-cCCccccceEEeeCCCCcChHHHHHHHHHHHHhh
Q psy12150         47 VIEQQEVVSVLKKCLSGA-DLPHFLFYGPPGTGKTSTMIAACHQL-FGDMYRERILELNASDDRGIQVIRDKVKTFAQQT  124 (456)
Q Consensus        47 ivg~~~~~~~l~~~l~~~-~~~~~Ll~G~~G~GKT~~a~~l~~~l-~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~  124 (456)
                      .+|++..++.|.+++... ..+.+.|+|+.|+|||++|+.+++.. ....+...++-++.+.......+...+.......
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i  209 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI  209 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhc
Confidence            399999999999998763 33349999999999999999998631 0111222233334443333333222222211110


Q ss_pred             ccCCC-CCC---------------------CCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccc
Q psy12150        125 ASGFN-QDG---------------------KPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQ  182 (456)
Q Consensus       125 ~~~~~-~~~---------------------~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~  182 (456)
                      ..... ...                     .....+-+||+||++.  .+..+    .+   +..+.+|+++....-. .
T Consensus       210 ~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd--~eqLe----~f---~pGSRILVTTRd~~Va-~  279 (1221)
T 1vt4_I          210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN--AKAWN----AF---NLSCKILLTTRFKQVT-D  279 (1221)
T ss_dssp             CSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCC--HHHHH----HH---HSSCCEEEECSCSHHH-H
T ss_pred             CcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcCh--HHHHH----hh---CCCeEEEEeccChHHH-H
Confidence            00000 000                     0001333999999988  22222    22   2456677776543211 1


Q ss_pred             ccc-CCceEEEec----CCCHHHHHHHHHHHH
Q psy12150        183 PLT-SRCSKFRFK----PLAENTMLTRLQYIC  209 (456)
Q Consensus       183 ~l~-~r~~~i~f~----~~~~~el~~~l~~~~  209 (456)
                      .+. .+...+.++    +++.++..+++...+
T Consensus       280 ~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~  311 (1221)
T 1vt4_I          280 FLSAATTTHISLDHHSMTLTPDEVKSLLLKYL  311 (1221)
T ss_dssp             HHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH
T ss_pred             hcCCCeEEEecCccccCCcCHHHHHHHHHHHc
Confidence            111 112244444    789999999888774

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.68  E-value=0.0007  Score=81.83  Aligned_cols=170  Identities=16%  Similarity=0.124  Sum_probs=115.3

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCC
Q psy12150         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQD  131 (456)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~  131 (456)
                      +....+-.++..+.  +..+.||+|||||.+++.+++.++.     .++.+||++......+...+..+.+.+.      
T Consensus       592 rcy~tl~~Al~~~~--gg~~~GPaGtGKTet~k~La~~lgr-----~~~vfnC~~~~d~~~~g~i~~G~~~~Ga------  658 (3245)
T 3vkg_A          592 RCYLTLTQALESRM--GGNPFGPAGTGKTETVKALGSQLGR-----FVLVFCCDEGFDLQAMSRIFVGLCQCGA------  658 (3245)
T ss_dssp             HHHHHHHHHHHTTC--EEEEECSTTSSHHHHHHHHHHHTTC-----CEEEEECSSCCCHHHHHHHHHHHHHHTC------
T ss_pred             HHHHHHHHHHHhcC--CCCCCCCCCCCHHHHHHHHHHHhCC-----eEEEEeCCCCCCHHHHHHHHhhHhhcCc------
Confidence            33455666666443  2578899999999999999999864     5678899988777777666666554432      


Q ss_pred             CCCCCCcEEEEEcCCCCccHHHHHHHHHHHH-------hc--------------cCcceEEEEecC----cccccccccC
Q psy12150        132 GKPCPPFKIVILDEADSMTHAAQAALRRTME-------KE--------------TKSTRFCLICNY----VSCIIQPLTS  186 (456)
Q Consensus       132 ~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le-------~~--------------~~~~~lIl~~~~----~~kl~~~l~~  186 (456)
                              -.++||++++..+....+...+.       +.              .+.+.++++.|+    +..+.+.+++
T Consensus       659 --------W~cfDEfNrl~~~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~  730 (3245)
T 3vkg_A          659 --------WGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKK  730 (3245)
T ss_dssp             --------EEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHT
T ss_pred             --------EEEehhhhcCCHHHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHh
Confidence                    67999999999887665544332       11              123445555563    4678889999


Q ss_pred             CceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHH---HHc----------CCCHHHHHHHHHHHHHh
Q psy12150        187 RCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLV---ETS----------GGDMRRAITCLQSCARL  245 (456)
Q Consensus       187 r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~---~~s----------~gdlr~~~~~L~~~~~~  245 (456)
                      ++..+.+..|+.+.+.+++-   ..+|..-.......++   +.+          +-.+|.+...|..+...
T Consensus       731 lFr~v~m~~Pd~~~i~ei~L---~s~Gf~~a~~La~k~~~~~~l~~e~LS~Q~HYDfGLRalKsVL~~AG~l  799 (3245)
T 3vkg_A          731 LFRSMAMIKPDREMIAQVML---YSQGFKTAEVLAGKIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSAGGI  799 (3245)
T ss_dssp             TEEEEECCSCCHHHHHHHHH---HTTTCSCHHHHHHHHHHHHHHHHHSSCCCTTCCCSHHHHHHHHHHHHHH
T ss_pred             hcEEEEEeCCCHHHHHHHHH---HHcccchHHHHHHHHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHHH
Confidence            99999999999988887753   3456543333333322   111          23588888888766544

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.65  E-value=6e-06  Score=72.96  Aligned_cols=27  Identities=11%  Similarity=0.230  Sum_probs=20.9

Q ss_pred             CcEEEEEcCCCCccHHHHHHHHHHHHh
Q psy12150        137 PFKIVILDEADSMTHAAQAALRRTMEK  163 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~~~~~Ll~~le~  163 (456)
                      +..+|+|||++++.++..+.|....+.
T Consensus        76 ~~dvviIDE~Q~~~~~~~~~l~~l~~~  102 (184)
T 2orw_A           76 DTRGVFIDEVQFFNPSLFEVVKDLLDR  102 (184)
T ss_dssp             TEEEEEECCGGGSCTTHHHHHHHHHHT
T ss_pred             CCCEEEEECcccCCHHHHHHHHHHHHC
Confidence            467999999999977767666666654

>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=97.53  E-value=0.0004  Score=66.13  Aligned_cols=21  Identities=24%  Similarity=0.281  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|+||||+|||+++..++..
T Consensus       126 iLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          126 VIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             EEEECSCSSSHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHh
Confidence            899999999999999999987

>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=97.52  E-value=0.00012  Score=66.34  Aligned_cols=24  Identities=33%  Similarity=0.354  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++++|++|+||||++..++..+..
T Consensus        15 ~litG~mGsGKTT~ll~~~~r~~~   38 (223)
T 2b8t_A           15 EFITGPMFAGKTAELIRRLHRLEY   38 (223)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHh
Confidence            899999999999999888877643

>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=97.41  E-value=0.00028  Score=73.32  Aligned_cols=117  Identities=20%  Similarity=0.257  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHH-------HHHHHh
Q psy12150         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKV-------KTFAQQ  123 (456)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l-------~~~~~~  123 (456)
                      +.....+...+..   +.++|+|+||||||+++.+++..+.....  .+.-.. ........+.+.+       ..+...
T Consensus       192 ~~Q~~Av~~~~~~---~~~~I~G~pGTGKTt~i~~l~~~l~~~g~--~Vl~~A-pT~~Aa~~L~e~~~~~a~Tih~ll~~  265 (574)
T 3e1s_A          192 EEQASVLDQLAGH---RLVVLTGGPGTGKSTTTKAVADLAESLGL--EVGLCA-PTGKAARRLGEVTGRTASTVHRLLGY  265 (574)
T ss_dssp             HHHHHHHHHHTTC---SEEEEECCTTSCHHHHHHHHHHHHHHTTC--CEEEEE-SSHHHHHHHHHHHTSCEEEHHHHTTE
T ss_pred             HHHHHHHHHHHhC---CEEEEEcCCCCCHHHHHHHHHHHHHhcCC--eEEEec-CcHHHHHHhHhhhcccHHHHHHHHcC
Confidence            4445555555432   35999999999999999999987654332  333322 2212222222211       111110


Q ss_pred             hccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        124 TASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       124 ~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      ....+........++++|||||+..+.......|++.+.   ....+|++++.
T Consensus       266 ~~~~~~~~~~~~~~~dvlIIDEasml~~~~~~~Ll~~~~---~~~~lilvGD~  315 (574)
T 3e1s_A          266 GPQGFRHNHLEPAPYDLLIVDEVSMMGDALMLSLLAAVP---PGARVLLVGDT  315 (574)
T ss_dssp             ETTEESCSSSSCCSCSEEEECCGGGCCHHHHHHHHTTSC---TTCEEEEEECT
T ss_pred             CcchhhhhhcccccCCEEEEcCccCCCHHHHHHHHHhCc---CCCEEEEEecc
Confidence            000000000111256799999999998887777765543   45677777764

>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=97.17  E-value=0.0015  Score=57.59  Aligned_cols=98  Identities=12%  Similarity=0.161  Sum_probs=58.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC-CCcChHHH-----------------------------HHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS-DDRGIQVI-----------------------------RDKV  117 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~-~~~~~~~i-----------------------------~~~l  117 (456)
                      .+++|+++|.||||+|-.++-...+...+.-++.+... ...+...+                             ...+
T Consensus        30 ~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~~~l  109 (196)
T 1g5t_A           30 IIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMAVW  109 (196)
T ss_dssp             CEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHHHHH
Confidence            49999999999999999888776555454444433222 11111111                             1111


Q ss_pred             HHHHHhhccCCCCCCCCCCCcEEEEEcCCC------CccHHHHHHHHHHHHhccCcceEEEEecCc
Q psy12150        118 KTFAQQTASGFNQDGKPCPPFKIVILDEAD------SMTHAAQAALRRTMEKETKSTRFCLICNYV  177 (456)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~iviIDE~d------~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~  177 (456)
                      .........         ..+++||+||+.      .+..   +.+++++.+.+...-+|++++..
T Consensus       110 ~~a~~~l~~---------~~yDlvILDEi~~al~~g~l~~---~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          110 QHGKRMLAD---------PLLDMVVLDELTYMVAYDYLPL---EEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHTTC---------TTCSEEEEETHHHHHHTTSSCH---HHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHhc---------CCCCEEEEeCCCccccCCCCCH---HHHHHHHHhCcCCCEEEEECCCC
Confidence            111111111         266799999983      3433   45777888878888888898864

>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=97.02  E-value=0.0032  Score=65.89  Aligned_cols=104  Identities=20%  Similarity=0.269  Sum_probs=56.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCC--ccccceEEeeCCCCcChHHHHHHHHHHHHhhc-----------------cCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGD--MYRERILELNASDDRGIQVIRDKVKTFAQQTA-----------------SGF  128 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~--~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~-----------------~~~  128 (456)
                      .++++|+||||||+++..+...+...  .....+.-. +........+.+.+........                 ...
T Consensus       166 ~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~-APTg~AA~~L~e~~~~~~~~l~l~~~~~~~~~~~~~Tih~ll  244 (608)
T 1w36_D          166 ISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLA-APTGKAAARLTESLGKALRQLPLTDEQKKRIPEDASTLHRLL  244 (608)
T ss_dssp             EEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEE-BSSHHHHHHHHHHHTHHHHHSSCCSCCCCSCSCCCBTTTSCC
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEE-eCChhHHHHHHHHHHHHHhcCCCCHHHHhccchhhhhhHhhh
Confidence            49999999999999999888776421  111122222 2221222223333222111000                 000


Q ss_pred             C----------CCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        129 N----------QDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       129 ~----------~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      .          ....+ -+.++|||||++.+.......|++.+   +....+|++++.
T Consensus       245 ~~~~~~~~~~~~~~~~-l~~d~lIIDEAsml~~~~~~~Ll~~l---~~~~~liLvGD~  298 (608)
T 1w36_D          245 GAQPGSQRLRHHAGNP-LHLDVLVVDEASMIDLPMMSRLIDAL---PDHARVIFLGDR  298 (608)
T ss_dssp             -----------CTTSC-CSCSEEEECSGGGCBHHHHHHHHHTC---CTTCEEEEEECT
T ss_pred             ccCCCchHHHhccCCC-CCCCEEEEechhhCCHHHHHHHHHhC---CCCCEEEEEcch
Confidence            0          00111 14569999999988876666665544   455678888764

>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=96.99  E-value=0.0035  Score=57.31  Aligned_cols=38  Identities=26%  Similarity=0.315  Sum_probs=27.9

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++.....+..+++.+   .++++||+|+|||.++..++..+
T Consensus        95 ~~~Q~~ai~~~~~~~---~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A           95 RDYQEKALERWLVDK---RGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             CHHHHHHHHHHTTTS---EEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHhCC---CEEEEeCCCCCHHHHHHHHHHHc
Confidence            344445555555542   48999999999999998888775

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.99  E-value=0.002  Score=74.97  Aligned_cols=37  Identities=24%  Similarity=0.322  Sum_probs=26.8

Q ss_pred             HHHHHh-cCCCC--eEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         57 LKKCLS-GADLP--HFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        57 l~~~l~-~~~~~--~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      |...+. +|-.+  +++|+||||||||+++.+++.+....
T Consensus      1415 LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~ea~~~ 1454 (2050)
T 3cmu_A         1415 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQRE 1454 (2050)
T ss_dssp             HHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             HHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            444554 33222  39999999999999999998876543

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=96.93  E-value=0.00075  Score=60.42  Aligned_cols=101  Identities=9%  Similarity=0.043  Sum_probs=47.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCC--cChHHHHHHHHHHHHhhccCCCC-CC--CCCCCcEEEEE
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDD--RGIQVIRDKVKTFAQQTASGFNQ-DG--KPCPPFKIVIL  143 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~--~~~~~i~~~l~~~~~~~~~~~~~-~~--~~~~~~~iviI  143 (456)
                      ++++|+.|+|||+.+...+........  .++-+...-.  .+...+...+.. .......... ..  ....++.+|+|
T Consensus        31 ~vitG~MgsGKTT~lL~~a~r~~~~g~--kVli~k~~~d~R~ge~~i~s~~g~-~~~a~~~~~~~~~~~~~~~~~dvViI  107 (214)
T 2j9r_A           31 EVICGSMFSGKSEELIRRVRRTQFAKQ--HAIVFKPCIDNRYSEEDVVSHNGL-KVKAVPVSASKDIFKHITEEMDVIAI  107 (214)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTC--CEEEEECC------------------CCEEECSSGGGGGGGCCSSCCEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCC--EEEEEEeccCCcchHHHHHhhcCC-eeEEeecCCHHHHHHHHhcCCCEEEE
Confidence            789999999999988877776544333  3333332211  111222222110 0000000000 00  00013569999


Q ss_pred             cCCCCccHHHHHHHHHHHHhccCcceEEEEec
Q psy12150        144 DEADSMTHAAQAALRRTMEKETKSTRFCLICN  175 (456)
Q Consensus       144 DE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~  175 (456)
                      ||+++++.+..+.+.. +.+.  ...+|+++-
T Consensus       108 DEaQF~~~~~V~~l~~-l~~~--~~~Vi~~Gl  136 (214)
T 2j9r_A          108 DEVQFFDGDIVEVVQV-LANR--GYRVIVAGL  136 (214)
T ss_dssp             CCGGGSCTTHHHHHHH-HHHT--TCEEEEEEC
T ss_pred             ECcccCCHHHHHHHHH-HhhC--CCEEEEEec
Confidence            9999998776654444 3332  344555553

>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=96.90  E-value=0.0014  Score=57.82  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=20.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++++||.|+|||+.+..++..+.
T Consensus        11 ~v~~G~mgsGKTT~ll~~a~r~~   33 (191)
T 1xx6_A           11 EVIVGPMYSGKSEELIRRIRRAK   33 (191)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHHH
Confidence            89999999999999888877764

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.88  E-value=0.0022  Score=55.36  Aligned_cols=20  Identities=30%  Similarity=0.390  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      ++|.|+||+||||+++.+++
T Consensus         5 I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            5 ILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEecCCCCCHHHHHHHHHh
Confidence            89999999999999999998

>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=96.87  E-value=0.011  Score=53.67  Aligned_cols=50  Identities=18%  Similarity=0.126  Sum_probs=31.8

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCc----cccceEEeeCCC
Q psy12150         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNASD  106 (456)
Q Consensus        57 l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~----~~~~~~e~n~~~  106 (456)
                      |...+.++-.+.  ++|+||+|+|||+++..++.......    ....++.++...
T Consensus        13 LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~   68 (243)
T 1n0w_A           13 LDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEG   68 (243)
T ss_dssp             HHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             HHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCC
Confidence            344444443333  99999999999999999998632211    123456666554

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=96.86  E-value=0.0056  Score=59.41  Aligned_cols=49  Identities=14%  Similarity=0.109  Sum_probs=32.0

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         56 VLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        56 ~l~~~l~-~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      .|...+. +|-++.  ++|+||||+|||+++..++..+....  ..+++++...
T Consensus        48 ~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~~g--g~VlyId~E~   99 (356)
T 3hr8_A           48 AIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQKMG--GVAAFIDAEH   99 (356)
T ss_dssp             HHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSC
T ss_pred             HHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEeccc
Confidence            4555555 343333  99999999999999999998764221  1344555443

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=96.86  E-value=0.0016  Score=57.31  Aligned_cols=33  Identities=18%  Similarity=0.193  Sum_probs=24.2

Q ss_pred             EEEECCCCCcHH-HHHHHHHHHhcCCccccceEEeeC
Q psy12150         69 FLFYGPPGTGKT-STMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        69 ~Ll~G~~G~GKT-~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      +++|||.|+||| .+++++.+.....   ..++.+.+
T Consensus        23 ~fiyG~MgsGKTt~Ll~~i~n~~~~~---~kvl~~kp   56 (195)
T 1w4r_A           23 QVILGPMFSGKSTELMRRVRRFQIAQ---YKCLVIKY   56 (195)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTT---CCEEEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHcC---CeEEEEcc
Confidence            899999999999 7888887765443   24444443

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.82  E-value=0.0031  Score=55.53  Aligned_cols=71  Identities=14%  Similarity=0.201  Sum_probs=42.5

Q ss_pred             CcEEEEEcCCCCc---cHHHHHHHHHHHHhccCcceEE--EE-ecCc-ccccccccC--CceEEEecCCCHHHHHHHHHH
Q psy12150        137 PFKIVILDEADSM---THAAQAALRRTMEKETKSTRFC--LI-CNYV-SCIIQPLTS--RCSKFRFKPLAENTMLTRLQY  207 (456)
Q Consensus       137 ~~~iviIDE~d~l---~~~~~~~Ll~~le~~~~~~~lI--l~-~~~~-~kl~~~l~~--r~~~i~f~~~~~~el~~~l~~  207 (456)
                      +..++|+||++.+   .....+.|.++++.+.  ++++  ++ +.+. ..+.+.+..  .+.++++.+-+.+.+..-+..
T Consensus       105 ~~dvlilDE~g~~~~~~~~~~~~l~~~l~~~~--~~ilgti~vsh~~~~~~vd~i~~~~~~~i~~~~~~nr~~~~~~i~~  182 (189)
T 2i3b_A          105 GQRVCVIDEIGKMELFSQLFIQAVRQTLSTPG--TIILGTIPVPKGKPLALVEEIRNRKDVKVFNVTKENRNHLLPDIVT  182 (189)
T ss_dssp             CCCCEEECCCSTTTTTCSHHHHHHHHHHHCSS--CCEEEECCCCCSSCCTTHHHHHTTCCSEEEECCSSSGGGHHHHHHH
T ss_pred             CCCEEEEeCCCccccccHHHHHHHHHHHhCCC--cEEEEEeecCCCCchHHHHHHeecCCcEEEEeChHhHHHHHHHHHH
Confidence            4569999998666   3346777788887543  3332  12 1222 234455544  356888888777776666544


Q ss_pred             HH
Q psy12150        208 IC  209 (456)
Q Consensus       208 ~~  209 (456)
                      .+
T Consensus       183 ~~  184 (189)
T 2i3b_A          183 CV  184 (189)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=96.78  E-value=0.0086  Score=53.99  Aligned_cols=28  Identities=29%  Similarity=0.453  Sum_probs=23.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      ++++.|++|+|||+++-.++..+.....
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~G~   35 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQGV   35 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCC
Confidence            3999999999999999999888765444

>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=96.76  E-value=0.005  Score=59.78  Aligned_cols=35  Identities=29%  Similarity=0.405  Sum_probs=25.5

Q ss_pred             HHHHHh-cCCCCe--EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         57 LKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        57 l~~~l~-~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      |...+. +|-++.  ++|+||||+|||+++..++..+.
T Consensus        49 LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~   86 (349)
T 2zr9_A           49 LDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ   86 (349)
T ss_dssp             HHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             HHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            444454 333333  99999999999999999887653

>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=96.75  E-value=0.015  Score=51.87  Aligned_cols=45  Identities=24%  Similarity=0.383  Sum_probs=29.8

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        57 l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      |.+.+.++-.+.  ++|+||+|+|||+++..++. ..    ...++.++...
T Consensus         9 LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~~l~~-~~----~~~v~~i~~~~   55 (220)
T 2cvh_A            9 LDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL-LS----GKKVAYVDTEG   55 (220)
T ss_dssp             HHHHTTSSBCTTSEEEEECSTTSSHHHHHHHHHH-HH----CSEEEEEESSC
T ss_pred             HHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHH-Hc----CCcEEEEECCC
Confidence            334444333333  99999999999999999987 21    12455565544

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.74  E-value=0.0089  Score=58.10  Aligned_cols=34  Identities=21%  Similarity=0.271  Sum_probs=25.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      ++|+|+||+|||+++..++..+.....  .++.++.
T Consensus        66 i~I~G~pGsGKTtLal~la~~~~~~g~--~vlyid~   99 (356)
T 1u94_A           66 VEIYGPESSGKTTLTLQVIAAAQREGK--TCAFIDA   99 (356)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEES
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC--eEEEEeC
Confidence            999999999999999998876542211  3445554

>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=96.74  E-value=0.0074  Score=54.49  Aligned_cols=101  Identities=8%  Similarity=0.119  Sum_probs=48.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCC-C-CCCCCcEEEEEcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQD-G-KPCPPFKIVILDEA  146 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~-~-~~~~~~~iviIDE~  146 (456)
                      ++++|+.|+|||+.+-..+........+.-++........+ ..+...+.. ........... . ....++.+|+|||+
T Consensus        22 ~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~D~Ryg-~~i~sr~G~-~~~a~~i~~~~di~~~~~~~dvViIDEa   99 (234)
T 2orv_A           22 QVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDRN-TMEALPACLLRDVAQEALGVAVIGIDEG   99 (234)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCCC-------------CEEEEESSGGGGHHHHTTCSEEEESSG
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecCCccch-HHHHhhcCC-eeEEEecCCHHHHHHHhccCCEEEEEch
Confidence            89999999999987766665554433322222211211112 222222110 00000000000 0 00014569999999


Q ss_pred             CCccHHHHHHHHHHHHhccCcceEEEEec
Q psy12150        147 DSMTHAAQAALRRTMEKETKSTRFCLICN  175 (456)
Q Consensus       147 d~l~~~~~~~Ll~~le~~~~~~~lIl~~~  175 (456)
                      +++.+  ...+.+.+.+.  ...+|+++-
T Consensus       100 QF~~~--v~el~~~l~~~--gi~VI~~GL  124 (234)
T 2orv_A          100 QFFPD--IVEFCEAMANA--GKTVIVAAL  124 (234)
T ss_dssp             GGCTT--HHHHHHHHHHT--TCEEEEECC
T ss_pred             hhhhh--HHHHHHHHHhC--CCEEEEEec
Confidence            99974  66777777763  345555553

>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=96.72  E-value=0.033  Score=57.17  Aligned_cols=70  Identities=19%  Similarity=0.235  Sum_probs=47.1

Q ss_pred             CcEEEEEcCCCCccH----HHHHHHHHHHHhcc-CcceEEEEecCcc--cccccccCCce-EEEecCCCHHHHHHHHH
Q psy12150        137 PFKIVILDEADSMTH----AAQAALRRTMEKET-KSTRFCLICNYVS--CIIQPLTSRCS-KFRFKPLAENTMLTRLQ  206 (456)
Q Consensus       137 ~~~iviIDE~d~l~~----~~~~~Ll~~le~~~-~~~~lIl~~~~~~--kl~~~l~~r~~-~i~f~~~~~~el~~~l~  206 (456)
                      ++-+|||||++.+..    +..+.|.++..... ..+.+|+++..+.  .+...+++.+. ++.|..-+..+...++.
T Consensus       343 P~ivvVIDE~~~L~~~~~~~~~~~L~~Iar~GRa~GIhLIlaTQRPs~d~I~~~Iran~~~RI~lrv~s~~Dsr~ILd  420 (574)
T 2iut_A          343 PTIVVVVDEFADMMMIVGKKVEELIARIAQKARAAGIHLILATQRPSVDVITGLIKANIPTRIAFQVSSKIDSRTILD  420 (574)
T ss_dssp             CEEEEEESCCTTHHHHTCHHHHHHHHHHHHHCTTTTEEEEEEESCCCTTTSCHHHHHTCCEEEEECCSCHHHHHHHHS
T ss_pred             CcEEEEEeCHHHHhhhhhHHHHHHHHHHHHHHhhCCeEEEEEecCcccccccHHHHhhhccEEEEEcCCHHHHHHhcC
Confidence            456999999998753    33445555555544 3455777777665  45556776665 78888888888877664

>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=96.68  E-value=0.02  Score=57.06  Aligned_cols=27  Identities=30%  Similarity=0.441  Sum_probs=23.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      +++.|++|+||||++..++..+.....
T Consensus       103 IlivG~~G~GKTTt~~kLA~~l~~~G~  129 (443)
T 3dm5_A          103 LLMVGIQGSGKTTTVAKLARYFQKRGY  129 (443)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTTTC
T ss_pred             EEEECcCCCCHHHHHHHHHHHHHHCCC
Confidence            999999999999999999988765433

>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=0.01  Score=54.90  Aligned_cols=24  Identities=25%  Similarity=0.369  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.|+||+||||+++.+++.+.
T Consensus         6 lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            6 LIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            489999999999999999999853

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.60  E-value=0.006  Score=54.89  Aligned_cols=22  Identities=32%  Similarity=0.372  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|+||+|+|||++++.++..+
T Consensus        26 ~~i~G~~GsGKTtl~~~l~~~~   47 (235)
T 2w0m_A           26 IALTGEPGTGKTIFSLHFIAKG   47 (235)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Confidence            8999999999999999998655

>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=96.56  E-value=0.016  Score=56.55  Aligned_cols=37  Identities=30%  Similarity=0.308  Sum_probs=26.4

Q ss_pred             HHHHHHHh-cCCCCe--EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         55 SVLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        55 ~~l~~~l~-~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ..|...+. +|-++.  ++|+|+||+|||+++..++..+.
T Consensus        60 ~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~   99 (366)
T 1xp8_A           60 LSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQ   99 (366)
T ss_dssp             HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHH
Confidence            34555554 333222  99999999999999999887653

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.55  E-value=0.016  Score=52.62  Aligned_cols=22  Identities=36%  Similarity=0.341  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|+||||+|||+++..++...
T Consensus        26 ~~i~G~~GsGKTtl~~~~~~~~   47 (247)
T 2dr3_A           26 VLLSGGPGTGKTIFSQQFLWNG   47 (247)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8999999999999988877654

>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=96.53  E-value=0.041  Score=49.00  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.|+||+||||+++.+++.++
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3dl0_A            3 LVLMGLPGAGKGTQGERIVEKYG   25 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999998864

>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=96.52  E-value=0.022  Score=55.16  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=20.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|+||+|+|||+++..++...
T Consensus       134 ~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          134 TEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            9999999999999999999875

>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=96.51  E-value=0.027  Score=56.07  Aligned_cols=27  Identities=26%  Similarity=0.276  Sum_probs=23.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      +++.|++|+||||++..++..+.....
T Consensus       100 I~lvG~~GsGKTTt~~kLA~~l~~~G~  126 (433)
T 3kl4_A          100 IMLVGVQGSGKTTTAGKLAYFYKKRGY  126 (433)
T ss_dssp             EEECCCTTSCHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence            899999999999999999988754433

>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=96.47  E-value=0.025  Score=50.66  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||+++.++..+
T Consensus        28 ~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           28 TEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            9999999999999999999854

>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=96.46  E-value=0.004  Score=71.65  Aligned_cols=23  Identities=26%  Similarity=0.442  Sum_probs=21.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +++|||||||||+++.+++.+-.
T Consensus      1085 ~l~~G~~g~GKT~la~~~~~~~~ 1107 (1706)
T 3cmw_A         1085 VEIYGPESSGKTTLTLQVIAAAQ 1107 (1706)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCChHHHHHHHHHHhh
Confidence            99999999999999999987653

>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=96.43  E-value=0.013  Score=52.16  Aligned_cols=27  Identities=26%  Similarity=0.404  Sum_probs=23.0

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         65 DLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        65 ~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ..+.++|.|++|+|||+++.++.....
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~~   37 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDSV   37 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            345699999999999999999998653

>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=96.41  E-value=0.015  Score=55.06  Aligned_cols=51  Identities=14%  Similarity=0.147  Sum_probs=32.1

Q ss_pred             HHHHHHh----cCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         56 VLKKCLS----GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        56 ~l~~~l~----~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      .|-..+.    +|-++. ++++||||+|||+++..++...........+++++...
T Consensus        13 ~LD~~LGg~~~GGl~~GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~   68 (333)
T 3io5_A           13 MMNIALSGEITGGMQSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEF   68 (333)
T ss_dssp             HHHHHHHSSTTCCBCSEEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSC
T ss_pred             HHHHHhCCCCCCCCcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccc
Confidence            4555565    444444 89999999999999887776553210112455555543

>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=96.29  E-value=0.0057  Score=59.91  Aligned_cols=24  Identities=38%  Similarity=0.488  Sum_probs=21.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|+||+|+||||+++.++....+
T Consensus       172 i~l~G~~GsGKSTl~~~l~~~~~g  195 (377)
T 1svm_A          172 WLFKGPIDSGKTTLAAALLELCGG  195 (377)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhhcCC
Confidence            999999999999999999987643

>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=96.27  E-value=0.03  Score=55.20  Aligned_cols=38  Identities=13%  Similarity=0.079  Sum_probs=26.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCc----cccceEEeeCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNASD  106 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~----~~~~~~e~n~~~  106 (456)
                      +.|+||+|+|||+++..++-....+.    ....+++++...
T Consensus       181 ~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~  222 (400)
T 3lda_A          181 TELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEG  222 (400)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             EEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCC
Confidence            99999999999999998764432211    123466666654

>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=96.17  E-value=0.0057  Score=60.88  Aligned_cols=22  Identities=23%  Similarity=0.335  Sum_probs=20.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.|+||+||||+++.+++.+
T Consensus       261 Iil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          261 VVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             EEEESCTTSSHHHHHHHHTGGG
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            8999999999999999999876

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=96.13  E-value=0.075  Score=48.09  Aligned_cols=20  Identities=25%  Similarity=0.375  Sum_probs=16.5

Q ss_pred             eEEEECCCCCcHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAAC   87 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~   87 (456)
                      .+++.||+|+|||++...+.
T Consensus        78 ~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           78 VVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCcHHhHHHHH
Confidence            48999999999998765543

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.10  E-value=0.004  Score=54.17  Aligned_cols=26  Identities=23%  Similarity=0.186  Sum_probs=23.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.++|.|++|+||||+++.+++.++.
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~~l~~   31 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAKLTKR   31 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            45999999999999999999998754

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.10  E-value=0.0032  Score=54.38  Aligned_cols=24  Identities=17%  Similarity=0.213  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|+|++|+||||+++.+++.+.
T Consensus         5 ~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            389999999999999999999874

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.09  E-value=0.005  Score=59.42  Aligned_cols=39  Identities=18%  Similarity=0.389  Sum_probs=30.5

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         54 VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        54 ~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +..+...++.+..++++|.|++|+||||+++++++.+..
T Consensus        12 l~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~~   50 (359)
T 2ga8_A           12 LQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINE   50 (359)
T ss_dssp             HHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhCC
Confidence            344444455676677999999999999999999998753

>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=96.07  E-value=0.004  Score=54.33  Aligned_cols=26  Identities=27%  Similarity=0.383  Sum_probs=23.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      .++|.|++|+||||+++.+++.+...
T Consensus         5 ~I~i~G~~GsGKsT~~~~L~~~l~~~   30 (192)
T 1kht_A            5 VVVVTGVPGVGSTTSSQLAMDNLRKE   30 (192)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            48999999999999999999988643

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=96.01  E-value=0.0087  Score=53.12  Aligned_cols=38  Identities=21%  Similarity=0.363  Sum_probs=26.2

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++.....+..++++   .++++.+|+|+|||.++..++...
T Consensus        35 ~~~Q~~~i~~~~~~---~~~li~~~tGsGKT~~~~~~~~~~   72 (216)
T 3b6e_A           35 RPYQMEVAQPALEG---KNIIICLPTGSGKTRVAVYIAKDH   72 (216)
T ss_dssp             CHHHHHHHHHHHTT---CCEEEECSCHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhcC---CCEEEEcCCCCCHHHHHHHHHHHH
Confidence            34444445555543   358999999999999887766543

>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=95.99  E-value=0.0041  Score=53.24  Aligned_cols=25  Identities=16%  Similarity=0.125  Sum_probs=22.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .++|.|++|+||||+++.+++.+..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~   27 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKY   27 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4799999999999999999998753

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.86  E-value=0.0054  Score=53.51  Aligned_cols=26  Identities=23%  Similarity=0.294  Sum_probs=23.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      .++|.|+||+||||+++.+++.+...
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~~~   28 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            47999999999999999999988643

>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=95.85  E-value=0.046  Score=55.55  Aligned_cols=70  Identities=17%  Similarity=0.246  Sum_probs=42.8

Q ss_pred             CcEEEEEcCCCCccHHH----HHHHHHHHHhcc-CcceEEEEecCcc-c-ccccccCCce-EEEecCCCHHHHHHHHH
Q psy12150        137 PFKIVILDEADSMTHAA----QAALRRTMEKET-KSTRFCLICNYVS-C-IIQPLTSRCS-KFRFKPLAENTMLTRLQ  206 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~~----~~~Ll~~le~~~-~~~~lIl~~~~~~-k-l~~~l~~r~~-~i~f~~~~~~el~~~l~  206 (456)
                      ++-+|+|||+..+....    .+.+.++..... ..+.+|+++..+. . +...+++.+. ++-|.--+..+.+.++.
T Consensus       297 P~ivlvIDE~~~ll~~~~~~~~~~l~~Lar~gRa~GI~LIlaTQrp~~dvl~~~i~~n~~~RI~lrv~s~~dsr~ilg  374 (512)
T 2ius_A          297 PYIVVLVDEFADLMMTVGKKVEELIARLAQKARAAGIHLVLATQRPSVDVITGLIKANIPTRIAFTVSSKIDSRTILD  374 (512)
T ss_dssp             CEEEEEEETHHHHHHHHHHHHHHHHHHHHHHCGGGTEEEEEEESCCCTTTSCHHHHHHCCEEEEECCSSHHHHHHHHS
T ss_pred             CcEEEEEeCHHHHHhhhhHHHHHHHHHHHHHhhhCCcEEEEEecCCccccccHHHHhhcCCeEEEEcCCHHHHHHhcC
Confidence            34589999997665422    223333333333 2456677777665 3 4444665554 78888888888877664

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=95.83  E-value=0.0062  Score=52.76  Aligned_cols=25  Identities=32%  Similarity=0.468  Sum_probs=22.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.++|+|++|+||||+++.+++.+.
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~~~~   36 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELASKSG   36 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHhC
Confidence            3499999999999999999999874

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=95.81  E-value=0.0046  Score=61.50  Aligned_cols=93  Identities=17%  Similarity=0.145  Sum_probs=50.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHH-------------HHhhccCCCCCCCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTF-------------AQQTASGFNQDGKPC  135 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~-------------~~~~~~~~~~~~~~~  135 (456)
                      .++.|+||+|||+++..+++.  .     ...-+.+.. ...+++++.+...             .......   ...+.
T Consensus       164 ~~I~G~aGsGKTt~I~~~~~~--~-----~~lVlTpT~-~aa~~l~~kl~~~~~~~~~~~~V~T~dsfL~~~---~~~~~  232 (446)
T 3vkw_A          164 VLVDGVPGCGKTKEILSRVNF--E-----EDLILVPGR-QAAEMIRRRANASGIIVATKDNVRTVDSFLMNY---GKGAR  232 (446)
T ss_dssp             EEEEECTTSCHHHHHHHHCCT--T-----TCEEEESCH-HHHHHHHHHHTTTSCCCCCTTTEEEHHHHHHTT---TSSCC
T ss_pred             EEEEcCCCCCHHHHHHHHhcc--C-----CeEEEeCCH-HHHHHHHHHhhhcCccccccceEEEeHHhhcCC---CCCCC
Confidence            899999999999999877642  1     222222221 1223333332110             0000000   00000


Q ss_pred             CCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        136 PPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       136 ~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      .+.++|||||+..+.......++..+.   . ..+|+.++.
T Consensus       233 ~~~d~liiDE~sm~~~~~l~~l~~~~~---~-~~vilvGD~  269 (446)
T 3vkw_A          233 CQFKRLFIDEGLMLHTGCVNFLVEMSL---C-DIAYVYGDT  269 (446)
T ss_dssp             CCCSEEEEETGGGSCHHHHHHHHHHTT---C-SEEEEEECT
T ss_pred             CcCCEEEEeCcccCCHHHHHHHHHhCC---C-CEEEEecCc
Confidence            135799999999988877776665432   2 566677653

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.81  E-value=0.0064  Score=52.00  Aligned_cols=27  Identities=26%  Similarity=0.283  Sum_probs=23.3

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.+++|.|++|+||||+++.+++.++.
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg~   33 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALKL   33 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            345999999999999999999998753

>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=95.80  E-value=0.033  Score=64.18  Aligned_cols=36  Identities=25%  Similarity=0.314  Sum_probs=26.4

Q ss_pred             HHHHHHh-cCCCCe--EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         56 VLKKCLS-GADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        56 ~l~~~l~-~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .|.+.+. +|-.+.  ++|+||||+|||+++..++..+.
T Consensus       719 eLD~lLg~GGl~~G~lVlI~G~PG~GKTtLal~lA~~aa  757 (1706)
T 3cmw_A          719 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ  757 (1706)
T ss_dssp             HHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHhccCCcCCCceEEEECCCCCCcHHHHHHHHHHHH
Confidence            4444454 333333  99999999999999999988764

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.73  E-value=0.006  Score=52.34  Aligned_cols=24  Identities=29%  Similarity=0.477  Sum_probs=21.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+.|.|++|+||||+++.++..+.
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            489999999999999999999864

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.72  E-value=0.0077  Score=53.22  Aligned_cols=26  Identities=27%  Similarity=0.225  Sum_probs=23.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ..++|.|++|+||||+++.+++.++.
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~~l~~   51 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFARKLNV   51 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            35999999999999999999998743

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=95.72  E-value=0.044  Score=53.13  Aligned_cols=24  Identities=38%  Similarity=0.555  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.||+|+||||++++++..+.
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~~~  148 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDYLN  148 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhccc
Confidence            499999999999999999988764

>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=95.70  E-value=0.035  Score=52.70  Aligned_cols=24  Identities=25%  Similarity=0.368  Sum_probs=21.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +++.|++|+||||++..++..+..
T Consensus       107 i~ivG~~GsGKTTl~~~LA~~l~~  130 (306)
T 1vma_A          107 IMVVGVNGTGKTTSCGKLAKMFVD  130 (306)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCChHHHHHHHHHHHHHh
Confidence            899999999999999999987753

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.68  E-value=0.0067  Score=52.30  Aligned_cols=25  Identities=28%  Similarity=0.392  Sum_probs=22.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ..++|.|+||+||||+++.+++.+.
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            3589999999999999999999874

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=95.66  E-value=0.017  Score=60.11  Aligned_cols=41  Identities=22%  Similarity=0.233  Sum_probs=28.7

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      |...+..+.+.+..+. .++++.+|+|+|||.++-.++..+.
T Consensus       183 Q~~ai~~~~~~~~~~~-~~~ll~~~TGsGKT~~~~~~~~~l~  223 (590)
T 3h1t_A          183 QQIAINRAVQSVLQGK-KRSLITMATGTGKTVVAFQISWKLW  223 (590)
T ss_dssp             HHHHHHHHHHHHHTTC-SEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCC-CceEEEecCCCChHHHHHHHHHHHH
Confidence            3444555555555443 4589999999999999888777663

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.64  E-value=0.012  Score=55.35  Aligned_cols=22  Identities=45%  Similarity=0.643  Sum_probs=21.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.||||+||||+++.+++.+
T Consensus        36 ivl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           36 FLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             EEEECCTTSCTHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            9999999999999999999876

>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=95.63  E-value=0.032  Score=52.51  Aligned_cols=22  Identities=27%  Similarity=0.332  Sum_probs=20.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.|+||+||||+++.+++.+
T Consensus         5 I~l~G~~GsGKST~a~~L~~~~   26 (301)
T 1ltq_A            5 ILTIGCPGSGKSTWAREFIAKN   26 (301)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8999999999999999999863

>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=95.58  E-value=0.007  Score=51.69  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .++|.|+||+||||+++.+ +.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHT
T ss_pred             EEEEECCCCCCHHHHHHHH-HHC
Confidence            3789999999999999999 665

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.57  E-value=0.03  Score=65.44  Aligned_cols=24  Identities=25%  Similarity=0.410  Sum_probs=21.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++++||||||||+++.+++.+...
T Consensus      1084 vll~G~~GtGKT~la~~~~~ea~k 1107 (2050)
T 3cmu_A         1084 VEIYGPESSGKTTLTLQVIAAAQR 1107 (2050)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999876543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.56  E-value=0.031  Score=51.71  Aligned_cols=23  Identities=30%  Similarity=0.585  Sum_probs=21.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||+|+||||+++.++..+.
T Consensus        28 v~i~Gp~GsGKSTll~~l~g~~~   50 (261)
T 2eyu_A           28 ILVTGPTGSGKSTTIASMIDYIN   50 (261)
T ss_dssp             EEEECSTTCSHHHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHhCC
Confidence            99999999999999999998653

>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=95.55  E-value=0.012  Score=53.82  Aligned_cols=24  Identities=25%  Similarity=0.605  Sum_probs=22.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.|+||+||||+++.+++.++
T Consensus        31 ~I~l~G~~GsGKsT~a~~L~~~~g   54 (243)
T 3tlx_A           31 RYIFLGAPGSGKGTQSLNLKKSHC   54 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            399999999999999999998873

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.48  E-value=0.0086  Score=52.01  Aligned_cols=23  Identities=35%  Similarity=0.681  Sum_probs=21.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.|++|+||||+++.+++.++
T Consensus         7 I~l~G~~GsGKST~~~~La~~l~   29 (186)
T 3cm0_A            7 VIFLGPPGAGKGTQASRLAQELG   29 (186)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            89999999999999999998874

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=95.47  E-value=0.0097  Score=53.13  Aligned_cols=25  Identities=8%  Similarity=0.174  Sum_probs=20.1

Q ss_pred             CcEEEEEcCCCCccHHHHHHHHHHH
Q psy12150        137 PFKIVILDEADSMTHAAQAALRRTM  161 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~~~~~Ll~~l  161 (456)
                      +..+|+|||+++++++..+.+.++.
T Consensus       101 ~~dvV~IDEaQFf~~~~v~~l~~la  125 (219)
T 3e2i_A          101 NVDVIGIDEVQFFDDEIVSIVEKLS  125 (219)
T ss_dssp             TCSEEEECCGGGSCTHHHHHHHHHH
T ss_pred             CCCEEEEechhcCCHHHHHHHHHHH
Confidence            4459999999999987777776665

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=95.47  E-value=0.024  Score=59.77  Aligned_cols=40  Identities=30%  Similarity=0.389  Sum_probs=30.4

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++...+.+..++...  +..||+||||||||+++-.+...+.
T Consensus       191 N~~Q~~AV~~al~~~--~~~lI~GPPGTGKT~ti~~~I~~l~  230 (646)
T 4b3f_X          191 DTSQKEAVLFALSQK--ELAIIHGPPGTGKTTTVVEIILQAV  230 (646)
T ss_dssp             CHHHHHHHHHHHHCS--SEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhcCC--CceEEECCCCCCHHHHHHHHHHHHH
Confidence            567777888887643  3489999999999998776666554

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.47  E-value=0.01  Score=53.22  Aligned_cols=25  Identities=24%  Similarity=0.514  Sum_probs=22.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ..++|.|+||+||||+++.+++.+.
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3489999999999999999999874

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=95.47  E-value=0.0076  Score=52.63  Aligned_cols=23  Identities=35%  Similarity=0.414  Sum_probs=21.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.|+||+||||+++.+++.++
T Consensus         8 I~l~G~~GsGKST~~~~L~~~l~   30 (193)
T 2rhm_A            8 IIVTGHPATGKTTLSQALATGLR   30 (193)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999874

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=95.44  E-value=0.009  Score=51.89  Aligned_cols=25  Identities=24%  Similarity=0.293  Sum_probs=22.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .++|.|+||+||||+++.+++.++.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~   28 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALGV   28 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCC
Confidence            3899999999999999999998753

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.43  E-value=0.0096  Score=54.94  Aligned_cols=25  Identities=32%  Similarity=0.428  Sum_probs=22.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .++|.||+|+||||+++.+++.+..
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~~   27 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETGW   27 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCCC
Confidence            3789999999999999999998753

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=95.42  E-value=0.0096  Score=50.97  Aligned_cols=24  Identities=21%  Similarity=0.228  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.|++|+||||+++.+++.++
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            489999999999999999999874

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.40  E-value=0.0095  Score=51.75  Aligned_cols=22  Identities=14%  Similarity=0.303  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||+++.++..+
T Consensus         8 i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            8 LVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            8999999999999999999865

>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=95.39  E-value=0.12  Score=45.95  Aligned_cols=22  Identities=32%  Similarity=0.424  Sum_probs=17.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++++.+|+|+|||.++...+-.
T Consensus        53 ~~li~~~TGsGKT~~~~~~~~~   74 (220)
T 1t6n_A           53 DVLCQAKSGMGKTAVFVLATLQ   74 (220)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEECCCCCchhhhhhHHHHH
Confidence            4999999999999876655443

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.38  E-value=0.19  Score=47.69  Aligned_cols=48  Identities=13%  Similarity=0.110  Sum_probs=32.6

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        55 ~~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      ..|.+.+ +|-.+.  ++|.|+||+|||+++..++.......  ..++.++..
T Consensus        56 ~~LD~~l-gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE  105 (315)
T 3bh0_A           56 TELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE  105 (315)
T ss_dssp             HHHHHHH-SSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS
T ss_pred             HHHHhhc-CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC
Confidence            3444555 433333  99999999999999999987654332  256666554

>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=95.37  E-value=0.21  Score=41.51  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||+++.++...-
T Consensus         6 i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            6 VVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999988653

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.35  E-value=0.012  Score=51.99  Aligned_cols=23  Identities=26%  Similarity=0.484  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+.|.||+|+||||+++.++..+
T Consensus        31 ~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           31 HVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            49999999999999999999887

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.35  E-value=0.014  Score=53.82  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=21.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.|+||+||||+++.+++.+.
T Consensus        35 i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           35 ILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             EEEESCGGGTTHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHhcC
Confidence            99999999999999999999874

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.34  E-value=0.01  Score=51.77  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=21.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.|+||+||||+++.+++.++
T Consensus         6 I~l~G~~GsGKsT~a~~L~~~~~   28 (196)
T 1tev_A            6 VFVLGGPGAGKGTQCARIVEKYG   28 (196)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            89999999999999999999874

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.34  E-value=0.0098  Score=52.58  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.|++|+||||+++.+++.++
T Consensus        20 ~I~l~G~~GsGKSTla~~L~~~lg   43 (202)
T 3t61_A           20 SIVVMGVSGSGKSSVGEAIAEACG   43 (202)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            499999999999999999999874

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.33  E-value=0.0099  Score=53.08  Aligned_cols=24  Identities=21%  Similarity=0.306  Sum_probs=21.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.|+||+||||+++.+++.++.
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~   26 (216)
T 3fb4_A            3 IVLMGLPGAGKGTQAEQIIEKYEI   26 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            789999999999999999998743

>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=95.31  E-value=0.047  Score=53.33  Aligned_cols=22  Identities=27%  Similarity=0.510  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-.
T Consensus        32 ~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           32 VVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHHcCC
Confidence            8899999999999999999754

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=95.30  E-value=0.011  Score=52.28  Aligned_cols=24  Identities=33%  Similarity=0.665  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.|+||+||||+++.+++.+.
T Consensus        22 ~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           22 RVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            389999999999999999999874

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.26  E-value=0.011  Score=52.38  Aligned_cols=24  Identities=25%  Similarity=0.206  Sum_probs=22.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.|+||+||||+++.+++.+..
T Consensus         7 I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            7 IAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHhh
Confidence            899999999999999999998854

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=95.25  E-value=0.013  Score=50.98  Aligned_cols=22  Identities=41%  Similarity=0.593  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .++|+|++|+||||+++.+++.
T Consensus        12 ~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           12 NILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4999999999999999999998

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.25  E-value=0.012  Score=51.37  Aligned_cols=25  Identities=20%  Similarity=0.301  Sum_probs=22.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ..++|.|++|+||||+++.+++.+.
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3499999999999999999999874

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.25  E-value=0.023  Score=50.26  Aligned_cols=41  Identities=17%  Similarity=0.143  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHhcCCC--Ce-EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         51 QEVVSVLKKCLSGADL--PH-FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        51 ~~~~~~l~~~l~~~~~--~~-~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +..++.+.+.+.....  +. +.|.|++|+||||+++.++..+.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~   47 (201)
T 1rz3_A            4 RDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (201)
T ss_dssp             HHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3455566665554322  22 99999999999999999998763

>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=95.24  E-value=0.079  Score=51.60  Aligned_cols=22  Identities=32%  Similarity=0.552  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-.
T Consensus        40 ~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           40 LVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            8899999999999999998754

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=95.23  E-value=0.013  Score=50.91  Aligned_cols=24  Identities=21%  Similarity=0.371  Sum_probs=21.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.|++|+||||+++.+++.++
T Consensus         8 ~I~l~G~~GsGKsT~~~~L~~~l~   31 (194)
T 1qf9_A            8 VVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            389999999999999999999874

>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=95.22  E-value=0.14  Score=45.63  Aligned_cols=23  Identities=43%  Similarity=0.536  Sum_probs=17.5

Q ss_pred             eEEEECCCCCcHHHH-HHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTST-MIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~-a~~l~~~l   90 (456)
                      ++++.+|+|+|||.+ +-.+...+
T Consensus        53 ~~lv~~pTGsGKT~~~~~~~l~~l   76 (224)
T 1qde_A           53 DVLAQAQSGTGKTGTFSIAALQRI   76 (224)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHH
Confidence            599999999999987 34444444

>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=95.20  E-value=0.012  Score=52.54  Aligned_cols=23  Identities=30%  Similarity=0.593  Sum_probs=21.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||||+||+|.++.+++.++
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~g   25 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEKG   25 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            68899999999999999999873

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.19  E-value=0.012  Score=52.82  Aligned_cols=26  Identities=15%  Similarity=0.166  Sum_probs=23.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ..++|.|+||+||||+++.+++.+..
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~~l~~   31 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKTKYQL   31 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34999999999999999999998753

>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=95.18  E-value=0.066  Score=50.48  Aligned_cols=23  Identities=26%  Similarity=0.554  Sum_probs=21.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.|++|+||||++..++..+.
T Consensus       108 i~lvG~~GsGKTTl~~~LA~~l~  130 (296)
T 2px0_A          108 IVLFGSTGAGKTTTLAKLAAISM  130 (296)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            89999999999999999998775

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.17  E-value=0.019  Score=50.98  Aligned_cols=40  Identities=18%  Similarity=0.199  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHhcC-CCCe-EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         52 EVVSVLKKCLSGA-DLPH-FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        52 ~~~~~l~~~l~~~-~~~~-~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.++.|.+.+... ..+. +.|.||+|+||||+++.++..+.
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3455555555432 2222 89999999999999999998874

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens}

Probab=95.17  E-value=0.24  Score=46.58  Aligned_cols=51  Identities=16%  Similarity=0.238  Sum_probs=31.2

Q ss_pred             CCCcccccccHHHHHHHHH---------------HHhcCCCCeEEEECCCCCcHHHHHH-HHHHHhc
Q psy12150         41 PKTIDDVIEQQEVVSVLKK---------------CLSGADLPHFLFYGPPGTGKTSTMI-AACHQLF   91 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~---------------~l~~~~~~~~Ll~G~~G~GKT~~a~-~l~~~l~   91 (456)
                      ..+|+++--.+..++.|..               .+..+...++++++|+|+|||.+.. .+...+.
T Consensus        91 ~~~f~~l~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~~~~~~~l~~a~TGsGKT~a~~lp~l~~l~  157 (300)
T 3fmo_B           91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVE  157 (300)
T ss_dssp             CCCSGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHTSSSCCCEEEECCTTSSHHHHHHHHHHHHCC
T ss_pred             cCCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCCeEEEECCCCCCccHHHHHHHHHhhh
Confidence            3567776555655554432               2233333469999999999998743 4444443

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=95.16  E-value=0.052  Score=52.40  Aligned_cols=52  Identities=19%  Similarity=0.135  Sum_probs=33.8

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCc----cccceEEeeCCCC
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNASDD  107 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~----~~~~~~e~n~~~~  107 (456)
                      .|-..+.+|-.+.  ++|+||||+|||+++..++.....+.    ....+++++....
T Consensus       110 ~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~  167 (343)
T 1v5w_A          110 EFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENT  167 (343)
T ss_dssp             HHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSC
T ss_pred             hHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCC
Confidence            3444454443333  89999999999999999988642211    1235667766653

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.15  E-value=0.013  Score=49.88  Aligned_cols=24  Identities=17%  Similarity=0.066  Sum_probs=21.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.|++|+||||+++.+++.+..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~l~~   26 (168)
T 2pt5_A            3 IYLIGFMCSGKSTVGSLLSRSLNI   26 (168)
T ss_dssp             EEEESCTTSCHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            789999999999999999998753

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.13  E-value=0.011  Score=51.77  Aligned_cols=24  Identities=21%  Similarity=0.328  Sum_probs=22.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.|+||+||||+++.+++.++
T Consensus        14 ~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           14 IIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            499999999999999999999874

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.13  E-value=0.02  Score=51.14  Aligned_cols=45  Identities=16%  Similarity=0.189  Sum_probs=35.6

Q ss_pred             cccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         48 IEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        48 vg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      -.+....+.++......+.+.++|.|++|+||||++..++..+..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~~   56 (221)
T 2wsm_A           12 AENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIGN   56 (221)
T ss_dssp             HHHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHTT
T ss_pred             hhcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            345566677777776666667999999999999999999988644

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.12  E-value=0.013  Score=51.02  Aligned_cols=24  Identities=29%  Similarity=0.407  Sum_probs=22.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.|++|+||||+++.++..+..
T Consensus        16 i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           16 VWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHh
Confidence            899999999999999999998753

>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=95.10  E-value=0.2  Score=41.76  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+++.|++|+|||++++++...-
T Consensus         6 ~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            38999999999999999998753

>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=95.10  E-value=0.017  Score=52.45  Aligned_cols=25  Identities=24%  Similarity=0.502  Sum_probs=22.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ..++|.|+||+||||+++.+++.+.
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3599999999999999999999874

>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=95.09  E-value=0.071  Score=45.26  Aligned_cols=21  Identities=29%  Similarity=0.431  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++.+...
T Consensus        10 i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A           10 VILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            899999999999999999864

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.09  E-value=0.074  Score=51.62  Aligned_cols=22  Identities=23%  Similarity=0.542  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-.
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           32 MALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCchHHHHHHHHhcCC
Confidence            8899999999999999998754

>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=95.09  E-value=0.073  Score=46.73  Aligned_cols=18  Identities=28%  Similarity=0.434  Sum_probs=15.2

Q ss_pred             CeEEEECCCCCcHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMI   84 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~   84 (456)
                      .++++.+|+|+|||.+..
T Consensus        41 ~~~lv~apTGsGKT~~~~   58 (206)
T 1vec_A           41 RDILARAKNGTGKSGAYL   58 (206)
T ss_dssp             CCEEEECCSSSTTHHHHH
T ss_pred             CCEEEECCCCCchHHHHH
Confidence            359999999999997654

>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=95.08  E-value=0.02  Score=50.58  Aligned_cols=24  Identities=25%  Similarity=0.386  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+.|.||+|+||||+++.++..+.
T Consensus        27 ~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           27 VIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            399999999999999999999874

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.07  E-value=0.014  Score=51.39  Aligned_cols=24  Identities=21%  Similarity=0.337  Sum_probs=22.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.|++|+||||+++.+++.+..
T Consensus         3 I~i~G~~GsGKsT~~~~L~~~l~~   26 (205)
T 2jaq_A            3 IAIFGTVGAGKSTISAEISKKLGY   26 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHCC
T ss_pred             EEEECCCccCHHHHHHHHHHhcCC
Confidence            789999999999999999998753

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.07  E-value=0.076  Score=51.36  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-.
T Consensus        44 ~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           44 VGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            8899999999999999998754

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.07  E-value=0.014  Score=52.45  Aligned_cols=23  Identities=22%  Similarity=0.485  Sum_probs=21.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||||+||+|.++.+++.++
T Consensus        32 I~llGpPGsGKgTqa~~L~~~~g   54 (217)
T 3umf_A           32 IFVLGGPGSGKGTQCEKLVQKFH   54 (217)
T ss_dssp             EEEECCTTCCHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            78899999999999999999873

>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=95.04  E-value=0.11  Score=44.82  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=20.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .++|.|++|+|||++++.+...-
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            38999999999999999998764

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.04  E-value=0.0086  Score=51.82  Aligned_cols=25  Identities=36%  Similarity=0.444  Sum_probs=18.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .++|.|+||+||||+++.+++.+..
T Consensus         7 ~I~l~G~~GsGKST~a~~La~~l~~   31 (183)
T 2vli_A            7 IIWINGPFGVGKTHTAHTLHERLPG   31 (183)
T ss_dssp             EEEEECCC----CHHHHHHHHHSTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCC
Confidence            4899999999999999999998754

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.03  E-value=0.013  Score=52.86  Aligned_cols=25  Identities=20%  Similarity=0.339  Sum_probs=22.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ..++|.|+||+||||+++.+++.++
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~~l~   32 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITTHFE   32 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3499999999999999999999864

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.03  E-value=0.013  Score=52.56  Aligned_cols=24  Identities=21%  Similarity=0.386  Sum_probs=22.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.|+||+||||+++.+++.++
T Consensus         7 ~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            7 NLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            489999999999999999999874

>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=95.02  E-value=0.1  Score=50.53  Aligned_cols=22  Identities=18%  Similarity=0.285  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||++++++.-.
T Consensus        57 ~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           57 YGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHhcCC
Confidence            8999999999999999998744

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.02  E-value=0.015  Score=51.31  Aligned_cols=24  Identities=21%  Similarity=0.343  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.|++|+||||+++.+++.++
T Consensus        17 ~I~l~G~~GsGKsT~~~~L~~~~g   40 (203)
T 1ukz_A           17 VIFVLGGPGAGKGTQCEKLVKDYS   40 (203)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            389999999999999999998863

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.01  E-value=0.013  Score=51.95  Aligned_cols=22  Identities=23%  Similarity=0.540  Sum_probs=21.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.||+|+||||+++.+++.+
T Consensus        15 i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           15 LVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8999999999999999999986

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.00  E-value=0.038  Score=49.42  Aligned_cols=43  Identities=23%  Similarity=0.288  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      +.....++..+.....+.++|.|.+|+|||+++..++......
T Consensus        23 ~~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~~~   65 (226)
T 2hf9_A           23 KRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKDK   65 (226)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            3445666666666556669999999999999999999886543

>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=94.99  E-value=0.015  Score=50.00  Aligned_cols=22  Identities=32%  Similarity=0.685  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.|++|+||||+++.++..+
T Consensus        11 i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A           11 YVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHhh
Confidence            8999999999999999999876

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=94.94  E-value=0.24  Score=50.23  Aligned_cols=24  Identities=29%  Similarity=0.375  Sum_probs=21.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.|++|+||||++..++..+..
T Consensus       104 I~ivG~~GvGKTTl~~kLA~~l~~  127 (504)
T 2j37_W          104 IMFVGLQGSGKTTTCSKLAYYYQR  127 (504)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh
Confidence            899999999999999999987653

>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=94.91  E-value=0.012  Score=51.30  Aligned_cols=21  Identities=33%  Similarity=0.594  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.|.||+|+||||+++.++..
T Consensus        12 i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           12 LLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            899999999999999999886

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=94.89  E-value=0.014  Score=51.70  Aligned_cols=26  Identities=19%  Similarity=0.258  Sum_probs=23.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      .++|.|++|+||||+++.+++.+...
T Consensus        12 ~I~l~G~~GsGKST~~~~L~~~l~~~   37 (212)
T 2wwf_A           12 FIVFEGLDRSGKSTQSKLLVEYLKNN   37 (212)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            38999999999999999999987543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=94.89  E-value=0.046  Score=47.53  Aligned_cols=23  Identities=17%  Similarity=0.354  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+++.|++|+|||+++.++...-
T Consensus         9 ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            9 KTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            39999999999999999998763

>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=94.87  E-value=0.017  Score=50.54  Aligned_cols=23  Identities=26%  Similarity=0.511  Sum_probs=21.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++|+||+|+||||+++.+.+..
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            48999999999999999999875

>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=94.83  E-value=0.043  Score=46.20  Aligned_cols=22  Identities=27%  Similarity=0.379  Sum_probs=20.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++.+...-
T Consensus         9 i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            9 VCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            8999999999999999998754

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.78  E-value=0.018  Score=51.89  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=21.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.|+||+||||+++.+++.++
T Consensus         3 I~l~G~~GsGKsT~a~~La~~lg   25 (223)
T 2xb4_A            3 ILIFGPNGSGKGTQGNLVKDKYS   25 (223)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999999874

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.78  E-value=0.018  Score=50.18  Aligned_cols=23  Identities=30%  Similarity=0.346  Sum_probs=21.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.|++|+||||+++.+++.+.
T Consensus         3 I~l~G~~GsGKsT~~~~L~~~l~   25 (195)
T 2pbr_A            3 IAFEGIDGSGKTTQAKKLYEYLK   25 (195)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            78999999999999999999873

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=94.74  E-value=0.23  Score=49.81  Aligned_cols=23  Identities=17%  Similarity=0.340  Sum_probs=21.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.|+||+|||+++..++..+.
T Consensus       206 iiI~G~pG~GKTtl~l~ia~~~~  228 (454)
T 2r6a_A          206 IIVAARPSVGKTAFALNIAQNVA  228 (454)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            99999999999999999988764

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=94.73  E-value=0.016  Score=51.67  Aligned_cols=23  Identities=17%  Similarity=0.261  Sum_probs=21.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.|+||+||||+++.+++.++
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~g   25 (214)
T 1e4v_A            3 IILLGAPVAGKGTQAQFIMEKYG   25 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999999874

>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=94.71  E-value=0.049  Score=52.06  Aligned_cols=52  Identities=17%  Similarity=0.187  Sum_probs=33.3

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCc----cccceEEeeCCCC
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDM----YRERILELNASDD  107 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~----~~~~~~e~n~~~~  107 (456)
                      .|...+.+|-.+.  ++|+||||+|||+++..++.......    ....+++++....
T Consensus        95 ~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~  152 (324)
T 2z43_A           95 ALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGT  152 (324)
T ss_dssp             HHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSC
T ss_pred             hHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCC
Confidence            3444444333333  99999999999999999988753220    1235666766653

>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=94.71  E-value=0.019  Score=52.53  Aligned_cols=25  Identities=24%  Similarity=0.453  Sum_probs=22.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ..+.|.||+|+||||+++.+++.++
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3499999999999999999998874

>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=94.71  E-value=0.042  Score=51.70  Aligned_cols=23  Identities=39%  Similarity=0.729  Sum_probs=21.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.|++|+||||+++.++..+.
T Consensus        34 i~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           34 IFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            89999999999999999998775

>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=94.69  E-value=0.13  Score=42.80  Aligned_cols=23  Identities=22%  Similarity=0.397  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+++.|++|+|||++++.+...-
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            38999999999999999998753

>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=94.66  E-value=0.12  Score=45.22  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=17.4

Q ss_pred             eEEEECCCCCcHHHHHH-HHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMI-AACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~-~l~~~l   90 (456)
                      ++++.+|+|+|||.++- .+...+
T Consensus        40 ~~li~~~TGsGKT~~~~~~~~~~l   63 (207)
T 2gxq_A           40 DLIGQARTGTGKTLAFALPIAERL   63 (207)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             CEEEECCCCChHHHHHHHHHHHHH
Confidence            59999999999998744 344443

>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=94.65  E-value=0.017  Score=51.51  Aligned_cols=23  Identities=26%  Similarity=0.391  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.||+|+||||+++.++..+.
T Consensus        11 i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A           11 IVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHHHSTT
T ss_pred             EEEECcCCCCHHHHHHHHHhhCC
Confidence            89999999999999999998763

>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA binding protein; HET: DNA; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.23

Probab=94.64  E-value=0.29  Score=45.43  Aligned_cols=39  Identities=8%  Similarity=0.014  Sum_probs=27.7

Q ss_pred             ccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         49 EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      -++.....+..++.+   .+.++.+|+|+|||.++..++...
T Consensus       114 l~~~Q~~ai~~~l~~---~~~ll~~~tGsGKT~~~~~~~~~~  152 (282)
T 1rif_A          114 PHWYQKDAVFEGLVN---RRRILNLPTSAGRSLIQALLARYY  152 (282)
T ss_dssp             CCHHHHHHHHHHHHH---SEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHhc---CCeEEEcCCCCCcHHHHHHHHHHH
Confidence            344455556666654   246889999999999987776653

>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=94.61  E-value=0.037  Score=46.53  Aligned_cols=23  Identities=22%  Similarity=0.468  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+++.|++|+|||++++.+...-
T Consensus         7 ~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            38999999999999999998753

>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=94.60  E-value=0.12  Score=50.15  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=18.1

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHH
Q psy12150         64 ADLPHFLFYGPPGTGKTSTMIAAC   87 (456)
Q Consensus        64 ~~~~~~Ll~G~~G~GKT~~a~~l~   87 (456)
                      +...++++.+|+|+|||..+...+
T Consensus        42 ~~~~~~lv~a~TGsGKT~~~~~~~   65 (395)
T 3pey_A           42 NPPRNMIAQSQSGTGKTAAFSLTM   65 (395)
T ss_dssp             SSCCCEEEECCTTSCHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHH
Confidence            333469999999999998765443

>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=94.58  E-value=0.068  Score=53.00  Aligned_cols=49  Identities=18%  Similarity=0.297  Sum_probs=34.2

Q ss_pred             CCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+++++--.......++..+.  .... ++|.||+|+||||+++++...+..
T Consensus       144 ~~l~~Lg~~~~~~~~L~~l~~--~~ggii~I~GpnGSGKTTlL~allg~l~~  193 (418)
T 1p9r_A          144 LDLHSLGMTAHNHDNFRRLIK--RPHGIILVTGPTGSGKSTTLYAGLQELNS  193 (418)
T ss_dssp             CCGGGSCCCHHHHHHHHHHHT--SSSEEEEEECSTTSCHHHHHHHHHHHHCC
T ss_pred             CCHHHcCCCHHHHHHHHHHHH--hcCCeEEEECCCCCCHHHHHHHHHhhcCC
Confidence            355565444444455666543  2223 899999999999999999998754

>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=94.55  E-value=0.019  Score=51.00  Aligned_cols=26  Identities=15%  Similarity=0.193  Sum_probs=23.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      .++|.|++|+||||+++.+++.+...
T Consensus        11 ~I~l~G~~GsGKsT~~~~L~~~l~~~   36 (215)
T 1nn5_A           11 LIVLEGVDRAGKSTQSRKLVEALCAA   36 (215)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            39999999999999999999987543

>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=94.54  E-value=0.25  Score=47.21  Aligned_cols=24  Identities=21%  Similarity=0.306  Sum_probs=18.7

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .++++.+|+|+|||..+...+-..
T Consensus        45 ~~~l~~~~TGsGKT~~~~~~~~~~   68 (367)
T 1hv8_A           45 YNIVAQARTGSGKTASFAIPLIEL   68 (367)
T ss_dssp             SEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             CCEEEECCCCChHHHHHHHHHHHH
Confidence            369999999999999876554443

>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=94.53  E-value=0.053  Score=46.94  Aligned_cols=22  Identities=27%  Similarity=0.585  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++.+....
T Consensus        17 i~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           17 IVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEECSTTSSHHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            9999999999999998777654

>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=94.52  E-value=0.087  Score=44.67  Aligned_cols=23  Identities=17%  Similarity=0.384  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+++.|++|+|||++++++...-
T Consensus        17 ~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           17 KYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            39999999999999999998754

>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=94.52  E-value=0.021  Score=49.80  Aligned_cols=22  Identities=36%  Similarity=0.682  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.||+|+||||+++.++...
T Consensus         5 i~l~G~~GaGKSTl~~~L~~~~   26 (189)
T 2bdt_A            5 YIITGPAGVGKSTTCKRLAAQL   26 (189)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCcHHHHHHHHhccc
Confidence            7899999999999999998754

>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=94.52  E-value=0.11  Score=44.85  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=20.7

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHH
Q psy12150         65 DLPHFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        65 ~~~~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +...+++.|++|+|||++++++..
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            333499999999999999999985

>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=94.49  E-value=0.036  Score=55.25  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+++.|++|+||||++..++..+.
T Consensus       101 vI~ivG~~GvGKTTla~~La~~l~  124 (432)
T 2v3c_C          101 VILLVGIQGSGKTTTAAKLARYIQ  124 (432)
T ss_dssp             CEEEECCSSSSTTHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            399999999999999999998764

>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=94.47  E-value=0.062  Score=46.29  Aligned_cols=21  Identities=38%  Similarity=0.551  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|++|+|||++++++...
T Consensus        14 i~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           14 FLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            999999999999999999874

>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=94.46  E-value=0.023  Score=50.96  Aligned_cols=24  Identities=29%  Similarity=0.382  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+.|.|++|+||||+++.+++.++
T Consensus         7 ~i~i~G~~GsGKSTl~~~L~~~~g   30 (227)
T 1cke_A            7 VITIDGPSGAGKGTLCKAMAEALQ   30 (227)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            489999999999999999999763

>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=94.42  E-value=0.27  Score=41.78  Aligned_cols=22  Identities=18%  Similarity=0.323  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++.+...-
T Consensus        21 i~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           21 VIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            9999999999999999998653

>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=94.41  E-value=0.021  Score=50.32  Aligned_cols=23  Identities=22%  Similarity=0.378  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .++|.|++|+||||+++.+++.+
T Consensus         6 ~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            6 LIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTS
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            48999999999999999999986

>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=94.39  E-value=0.16  Score=45.37  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.|.+|+|||+++..+...-
T Consensus        16 ivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           16 LVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCcCHHHHHHHHHhCC
Confidence            8999999999999999988643

>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=94.38  E-value=0.23  Score=46.67  Aligned_cols=24  Identities=29%  Similarity=0.447  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.+.|++|+||||++..++..+..
T Consensus       101 i~i~g~~G~GKTT~~~~la~~~~~  124 (295)
T 1ls1_A          101 WFLVGLQGSGKTTTAAKLALYYKG  124 (295)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            778899999999999999987653

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=94.35  E-value=0.024  Score=49.96  Aligned_cols=22  Identities=41%  Similarity=0.646  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||+++.++..+
T Consensus        10 i~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A           10 FIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHHhhC
Confidence            8899999999999999999864

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=94.34  E-value=0.031  Score=48.17  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.|++|+||||+++.++..+
T Consensus         8 i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            8 VWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8899999999999999999976

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=94.32  E-value=0.21  Score=42.70  Aligned_cols=22  Identities=23%  Similarity=0.419  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++++...-
T Consensus         7 i~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            7 LVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999998754

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=94.29  E-value=0.024  Score=49.93  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=21.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+.|.||+|+||||+++.++..+
T Consensus         8 ~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            8 LIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            38999999999999999999875

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=94.28  E-value=0.02  Score=50.63  Aligned_cols=36  Identities=17%  Similarity=0.170  Sum_probs=21.2

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        55 ~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.+.+.......-.+++.|++|+|||+++..+....
T Consensus        19 ~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           19 SHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             -----------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             hHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            334333333333349999999999999999998643

>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=94.27  E-value=0.036  Score=47.64  Aligned_cols=30  Identities=17%  Similarity=0.160  Sum_probs=24.6

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      ++.+.|.|++|+||||++..++..+....+
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~g~   33 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVREGW   33 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHTTC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhcCC
Confidence            345899999999999999999998754333

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.25  E-value=0.03  Score=53.42  Aligned_cols=24  Identities=29%  Similarity=0.484  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.||+|+|||+++..+++.++
T Consensus         7 ~i~i~GptGsGKTtla~~La~~l~   30 (323)
T 3crm_A            7 AIFLMGPTAAGKTDLAMALADALP   30 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            389999999999999999999874

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=94.22  E-value=0.18  Score=42.02  Aligned_cols=21  Identities=19%  Similarity=0.433  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++++...
T Consensus         6 i~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            899999999999999999874

>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=94.21  E-value=0.12  Score=49.49  Aligned_cols=37  Identities=19%  Similarity=0.324  Sum_probs=29.1

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         53 VVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        53 ~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.+.+.-.+..+.  .++|.||+|+||||++++++..+.
T Consensus       160 ~l~~l~~~i~~g~--~v~i~G~~GsGKTTll~~l~g~~~  196 (330)
T 2pt7_A          160 AISAIKDGIAIGK--NVIVCGGTGSGKTTYIKSIMEFIP  196 (330)
T ss_dssp             HHHHHHHHHHHTC--CEEEEESTTSCHHHHHHHGGGGSC
T ss_pred             HHhhhhhhccCCC--EEEEECCCCCCHHHHHHHHhCCCc
Confidence            4555666666554  489999999999999999998754

>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=94.20  E-value=0.064  Score=46.80  Aligned_cols=22  Identities=27%  Similarity=0.425  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||++++.+...
T Consensus        22 ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           22 RILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            4999999999999999977664

>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 3.19A {Homo sapiens}

Probab=94.20  E-value=0.28  Score=49.34  Aligned_cols=27  Identities=26%  Similarity=0.389  Sum_probs=19.1

Q ss_pred             CCCCeEEEECCCCCcHHHHH-HHHHHHh
Q psy12150         64 ADLPHFLFYGPPGTGKTSTM-IAACHQL   90 (456)
Q Consensus        64 ~~~~~~Ll~G~~G~GKT~~a-~~l~~~l   90 (456)
                      +...++++.||+|+|||.+. ..+...+
T Consensus       129 ~~~~~~l~~a~TGsGKT~~~~l~il~~l  156 (479)
T 3fmp_B          129 EPPQNLIAQSQSGTGKTAAFVLAMLSQV  156 (479)
T ss_dssp             BSCCEEEEECCSSSSHHHHHHHHHHTTC
T ss_pred             CCCCcEEEEcCCCCchhHHHHHHHHHHH
Confidence            33356999999999999874 3444443

>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=94.14  E-value=0.22  Score=43.99  Aligned_cols=22  Identities=27%  Similarity=0.436  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .++|.|++|+|||++++++...
T Consensus        27 ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           27 KLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            3899999999999999998864

>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=94.13  E-value=0.098  Score=43.82  Aligned_cols=21  Identities=19%  Similarity=0.415  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++++...
T Consensus         9 i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            899999999999999999864

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=94.12  E-value=0.094  Score=49.94  Aligned_cols=35  Identities=34%  Similarity=0.449  Sum_probs=25.5

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHh
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .|...+.+|-.+.  ++|+|+||+|||+++..++...
T Consensus        86 ~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A           86 ELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             HHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             hHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3444444443333  9999999999999999998763

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=94.11  E-value=0.037  Score=47.13  Aligned_cols=22  Identities=27%  Similarity=0.551  Sum_probs=19.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||++++++...
T Consensus        11 ~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B           11 KLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHCSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3999999999999999998753

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.09  E-value=0.55  Score=46.68  Aligned_cols=25  Identities=28%  Similarity=0.296  Sum_probs=22.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      +++.|++|+||||++..++..+...
T Consensus       103 I~ivG~~GvGKTT~a~~LA~~l~~~  127 (433)
T 2xxa_A          103 VLMAGLQGAGKTTSVGKLGKFLREK  127 (433)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHh
Confidence            8889999999999999999887643

>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=94.08  E-value=0.054  Score=48.12  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=21.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.|++|+||||+++.+++.+.
T Consensus        27 ~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           27 TIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            389999999999999999999875

>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=94.07  E-value=0.083  Score=45.55  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||+++..+...-
T Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           24 LVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            8999999999999999998753

>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=94.02  E-value=0.14  Score=44.56  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .++|.|++|+|||+++..+...-
T Consensus        16 ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           16 KVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            39999999999999999998653

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=93.99  E-value=0.034  Score=49.01  Aligned_cols=22  Identities=23%  Similarity=0.525  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||+++.+...+
T Consensus         7 i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            7 VVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            8999999999999999999865

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.98  E-value=0.17  Score=43.70  Aligned_cols=22  Identities=23%  Similarity=0.508  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++++...-
T Consensus        19 i~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           19 LLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            9999999999999999998753

>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA dependent ATPase, mRNA export, nucleocytoplasmic transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens} PDB: 3ews_A* 3g0h_A* 3fhc_B

Probab=93.95  E-value=0.3  Score=47.57  Aligned_cols=24  Identities=29%  Similarity=0.483  Sum_probs=18.1

Q ss_pred             CeEEEECCCCCcHHHHHH-HHHHHh
Q psy12150         67 PHFLFYGPPGTGKTSTMI-AACHQL   90 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~-~l~~~l   90 (456)
                      .++++.+|+|+|||..+- .+...+
T Consensus        65 ~~~lv~apTGsGKT~~~~~~~~~~~   89 (412)
T 3fht_A           65 QNLIAQSQSGTGKTAAFVLAMLSQV   89 (412)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             CeEEEECCCCchHHHHHHHHHHHHh
Confidence            459999999999998753 344444

>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=93.94  E-value=0.033  Score=49.17  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.||+|+||||+++.+++..
T Consensus        22 ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           22 LVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECcCCCCHHHHHHHHHhhC
Confidence            8999999999999999999875

>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=93.94  E-value=0.089  Score=50.95  Aligned_cols=38  Identities=24%  Similarity=0.316  Sum_probs=27.6

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEee
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n  103 (456)
                      .+.+.|.|+||+||||++.+++..+.....+.-++..+
T Consensus        79 ~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~D  116 (355)
T 3p32_A           79 AHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVD  116 (355)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEEC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEecC
Confidence            33499999999999999999998875443333344443

>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=93.91  E-value=0.035  Score=50.91  Aligned_cols=25  Identities=20%  Similarity=0.109  Sum_probs=22.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+.|.|++|+||||+++.+++.++.
T Consensus        24 iI~I~G~~GSGKST~a~~L~~~lg~   48 (252)
T 1uj2_A           24 LIGVSGGTASGKSSVCAKIVQLLGQ   48 (252)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhh
Confidence            3999999999999999999998753

>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=93.89  E-value=0.037  Score=50.26  Aligned_cols=24  Identities=33%  Similarity=0.369  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+.|.||+|+||||+++.+++.++
T Consensus        11 ~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A           11 VVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            499999999999999999999874

>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=93.88  E-value=0.12  Score=43.38  Aligned_cols=22  Identities=18%  Similarity=0.359  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++++...-
T Consensus         6 i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998653

>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=93.84  E-value=0.23  Score=41.33  Aligned_cols=23  Identities=22%  Similarity=0.234  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+++.|++|+|||++++.+...-
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999998653

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=93.83  E-value=0.21  Score=47.93  Aligned_cols=35  Identities=20%  Similarity=0.272  Sum_probs=26.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      ++|.|+||+|||+++..++..+....  ..+..++..
T Consensus        49 iiIaG~pG~GKTt~al~ia~~~a~~g--~~Vl~fSlE   83 (338)
T 4a1f_A           49 VIIGARPSMGKTSLMMNMVLSALNDD--RGVAVFSLE   83 (338)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTT--CEEEEEESS
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCC
Confidence            99999999999999999988764322  245555554

>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=93.83  E-value=0.18  Score=49.29  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=17.2

Q ss_pred             eEEEECCCCCcHHHHHHH-HHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIA-ACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~-l~~~l   90 (456)
                      ++++.+|+|+|||..+.. +...+
T Consensus        79 ~~lv~a~TGsGKT~~~~~~~~~~~  102 (414)
T 3eiq_A           79 DVIAQAQSGTGKTATFAISILQQI  102 (414)
T ss_dssp             CEEECCCSCSSSHHHHHHHHHHHC
T ss_pred             CEEEECCCCCcccHHHHHHHHHHH
Confidence            489999999999987543 34333

>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=93.81  E-value=0.19  Score=43.75  Aligned_cols=21  Identities=29%  Similarity=0.428  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|++|+|||++++.+...
T Consensus        11 i~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A           11 ILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            899999999999999998864

>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=93.80  E-value=0.13  Score=44.96  Aligned_cols=22  Identities=18%  Similarity=0.259  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .++|.|++|+|||++++.+...
T Consensus        31 ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           31 KLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhhC
Confidence            3899999999999999999764

>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=93.79  E-value=0.061  Score=46.43  Aligned_cols=27  Identities=30%  Similarity=0.396  Sum_probs=23.0

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+.+.|.|++|+||||+++.+...+..
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~~   32 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALCA   32 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhccc
Confidence            344899999999999999999987643

>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=93.76  E-value=0.15  Score=43.87  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+++.|++|+|||++++++...-
T Consensus        22 ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           22 KIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            39999999999999999998643

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}

Probab=93.75  E-value=0.41  Score=43.22  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=17.1

Q ss_pred             eEEEECCCCCcHHHHHH-HHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMI-AACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~-~l~~~l   90 (456)
                      ++++.+|+|+|||.+.. .+...+
T Consensus        68 ~~l~~a~TGsGKT~~~~l~~l~~l   91 (245)
T 3dkp_A           68 ELLASAPTGSGKTLAFSIPILMQL   91 (245)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHH
Confidence            48999999999998743 334444

>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=93.73  E-value=0.05  Score=46.62  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++.+...-
T Consensus         8 i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            8 CVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999998643

>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=93.73  E-value=0.27  Score=43.18  Aligned_cols=24  Identities=25%  Similarity=0.259  Sum_probs=21.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ..+++.|++|+|||+++.++...-
T Consensus         8 ~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            8 RAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            349999999999999999998754

>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=93.70  E-value=0.033  Score=49.06  Aligned_cols=22  Identities=23%  Similarity=0.243  Sum_probs=20.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+.|.|++|+||||+++.+++ +
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~   24 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-L   24 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-T
T ss_pred             EEEEECCCCcCHHHHHHHHHH-C
Confidence            478999999999999999998 5

>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=93.67  E-value=0.042  Score=48.39  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=22.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+.|.|++|+||||+++.+++.++
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            488999999999999999999875

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.62  E-value=0.77  Score=45.73  Aligned_cols=49  Identities=14%  Similarity=0.094  Sum_probs=32.4

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        55 ~~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      ..|.+.+ +|-.+.  ++|.|+||+|||+++..++...... ...+++.++..
T Consensus       188 ~~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~-~g~~vl~~slE  238 (444)
T 2q6t_A          188 KELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNAALK-EGVGVGIYSLE  238 (444)
T ss_dssp             HHHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESS
T ss_pred             Hhhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHh-CCCeEEEEECC
Confidence            3455555 443333  9999999999999999998875421 11246666554

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A*

Probab=93.59  E-value=0.16  Score=45.77  Aligned_cols=18  Identities=33%  Similarity=0.464  Sum_probs=15.1

Q ss_pred             eEEEECCCCCcHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIA   85 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~   85 (456)
                      ++++.+|+|+|||.+...
T Consensus        69 ~~li~apTGsGKT~~~~l   86 (237)
T 3bor_A           69 DVIAQAQSGTGKTATFAI   86 (237)
T ss_dssp             CEEECCCSSHHHHHHHHH
T ss_pred             CEEEECCCCCcHHHHHHH
Confidence            599999999999987443

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=93.59  E-value=0.2  Score=43.18  Aligned_cols=22  Identities=27%  Similarity=0.498  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++++...-
T Consensus        18 i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           18 ILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            9999999999999999998753

>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=93.58  E-value=0.038  Score=47.64  Aligned_cols=22  Identities=18%  Similarity=0.268  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++.+...-
T Consensus        10 i~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A           10 IVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998753

>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=93.58  E-value=0.09  Score=59.97  Aligned_cols=61  Identities=13%  Similarity=0.275  Sum_probs=36.9

Q ss_pred             CCcEEEEEcCCC-CccHHHHHHHHHHHHhccCcceEEEEecCccccccc----ccCCceEEEecCC
Q psy12150        136 PPFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQP----LTSRCSKFRFKPL  196 (456)
Q Consensus       136 ~~~~iviIDE~d-~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~----l~~r~~~i~f~~~  196 (456)
                      .+.+|+++||+- .+..+....+.+.+.+......+|+++++...+..+    +.+.+.++++..+
T Consensus      1234 r~~~ILiLDEaTSaLD~~tE~~Iq~~l~~~~~~~TvI~IAHRLsTi~~aD~I~Vld~G~IvE~Gth 1299 (1321)
T 4f4c_A         1234 RNPKILLLDEATSALDTESEKVVQEALDRAREGRTCIVIAHRLNTVMNADCIAVVSNGTIIEKGTH 1299 (1321)
T ss_dssp             SCCSEEEEESCCCSTTSHHHHHHHHHHTTTSSSSEEEEECSSSSTTTTCSEEEEESSSSEEEEECH
T ss_pred             hCCCEEEEeCccccCCHHHHHHHHHHHHHHcCCCEEEEeccCHHHHHhCCEEEEEECCEEEEECCH
Confidence            345699999985 344455555666776655555555666655443322    3466667777654

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=93.56  E-value=0.15  Score=43.41  Aligned_cols=21  Identities=24%  Similarity=0.513  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++++...
T Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           15 LVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECcCCCCHHHHHHHHHcC
Confidence            999999999999999999875

>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=93.55  E-value=0.078  Score=44.44  Aligned_cols=21  Identities=29%  Similarity=0.466  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      .+++.|++|+|||++++++..
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            489999999999999998864

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=93.53  E-value=0.28  Score=42.21  Aligned_cols=22  Identities=18%  Similarity=0.163  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++.+...-
T Consensus        25 i~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           25 LTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999998653

>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=93.52  E-value=0.035  Score=49.06  Aligned_cols=20  Identities=25%  Similarity=0.209  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +.|.|++|+||||+++.++.
T Consensus         5 i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            5 VGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEECSTTSCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999987

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=93.50  E-value=0.037  Score=47.53  Aligned_cols=17  Identities=24%  Similarity=0.512  Sum_probs=16.2

Q ss_pred             EEEECCCCCcHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIA   85 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~   85 (456)
                      +.|.||+|+||||+++.
T Consensus        12 ~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A           12 VVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEEECCTTSCHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHH
Confidence            89999999999999995

>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=93.50  E-value=0.26  Score=49.62  Aligned_cols=25  Identities=24%  Similarity=0.167  Sum_probs=22.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+++.|.||+||||+++.+++.+..
T Consensus        41 ~IvlvGlpGsGKSTia~~La~~l~~   65 (469)
T 1bif_A           41 LIVMVGLPARGKTYISKKLTRYLNF   65 (469)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhc
Confidence            3999999999999999999998753

>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=93.49  E-value=0.094  Score=44.61  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++++...-
T Consensus        13 i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           13 VMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHHhCC
Confidence            9999999999999999998753

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=93.48  E-value=0.11  Score=45.09  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=18.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++++...
T Consensus        29 i~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           29 VIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEECSTTSSHHHHHHHHCC-
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            899999999999999998753

>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=93.46  E-value=0.22  Score=47.08  Aligned_cols=22  Identities=23%  Similarity=0.469  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        83 vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           83 LALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             EEEESSSCHHHHHHHHHHTTSS
T ss_pred             EEEECCCCchHHHHHHHHHcCC
Confidence            8999999999999999998754

>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=93.44  E-value=0.14  Score=44.63  Aligned_cols=22  Identities=23%  Similarity=0.569  Sum_probs=20.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||++++++...
T Consensus        30 ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           30 KIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            4999999999999999999864

>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=93.37  E-value=0.23  Score=44.36  Aligned_cols=18  Identities=28%  Similarity=0.506  Sum_probs=15.1

Q ss_pred             eEEEECCCCCcHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIA   85 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~   85 (456)
                      ++++.+|+|+|||.+...
T Consensus        59 ~~l~~apTGsGKT~~~~l   76 (228)
T 3iuy_A           59 DLIVVAQTGTGKTLSYLM   76 (228)
T ss_dssp             CEEEECCTTSCHHHHHHH
T ss_pred             CEEEECCCCChHHHHHHH
Confidence            589999999999986543

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=93.37  E-value=0.049  Score=50.01  Aligned_cols=25  Identities=24%  Similarity=0.202  Sum_probs=22.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+.|.|++|+||||+++.+++.++.
T Consensus        50 ~i~l~G~~GsGKSTl~~~La~~lg~   74 (250)
T 3nwj_A           50 SMYLVGMMGSGKTTVGKIMARSLGY   74 (250)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCC
Confidence            4999999999999999999998743

>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=93.35  E-value=0.04  Score=53.00  Aligned_cols=88  Identities=11%  Similarity=0.043  Sum_probs=70.1

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCHH
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSAT  396 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~  396 (456)
                      +++..+.+.++||+|++.+.|+.++...++..|+.++|.+++|......+-++++   .++...+...+..+...|.++.
T Consensus       165 ~a~~~l~~~~~gdl~~~~~elekl~l~~~~~~It~e~V~~~~~~~~~~~if~l~~ai~~~d~~~al~~l~~l~~~g~~~~  244 (343)
T 1jr3_D          165 AANQVLCYCYEGNLLALAQALERLSLLWPDGKLTLPRVEQAVNDAAHFTPFHWVDALLMGKSKRALHILQQLRLEGSEPV  244 (343)
T ss_dssp             HHHHHHHHSSTTCHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHCCCCHHHHHHHHTTSCHHHHHHHHTSSTTTTCCHH
T ss_pred             HHHHHHHHHhchHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCcHH
Confidence            4567778899999999999999887654444688888888888776665555554   5888888888888889999999


Q ss_pred             HHHHHHHHHHh
Q psy12150        397 QLFDQFHDIVM  407 (456)
Q Consensus       397 di~~~l~~~~~  407 (456)
                      .|+..|...+.
T Consensus       245 ~il~~l~~~~r  255 (343)
T 1jr3_D          245 ILLRTLQRELL  255 (343)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99988865554

>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=93.35  E-value=0.021  Score=50.67  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=21.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.|++|+||||+++.+++.+.
T Consensus         3 I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            3 IAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            68999999999999999999875

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=93.34  E-value=0.049  Score=50.04  Aligned_cols=24  Identities=29%  Similarity=0.361  Sum_probs=22.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+.|.||+|+||||+++.+++.++
T Consensus        29 ~I~I~G~~GsGKSTl~k~La~~Lg   52 (252)
T 4e22_A           29 VITVDGPSGAGKGTLCKALAESLN   52 (252)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            389999999999999999998874

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=93.31  E-value=0.054  Score=48.18  Aligned_cols=22  Identities=18%  Similarity=0.311  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||+++..+...-
T Consensus        30 i~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           30 LVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            9999999999999999998753

>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=93.29  E-value=0.26  Score=52.84  Aligned_cols=31  Identities=23%  Similarity=0.329  Sum_probs=21.7

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHH
Q psy12150         56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        56 ~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      .+...+.++  ..+++.||+|+|||+++..+..
T Consensus       101 ~i~~~l~~~--~~vii~gpTGSGKTtllp~ll~  131 (773)
T 2xau_A          101 EFLKLYQNN--QIMVFVGETGSGKTTQIPQFVL  131 (773)
T ss_dssp             HHHHHHHHC--SEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHhCC--CeEEEECCCCCCHHHHHHHHHH
Confidence            334444443  2589999999999997766644

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A

Probab=93.28  E-value=0.55  Score=45.33  Aligned_cols=21  Identities=29%  Similarity=0.401  Sum_probs=16.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      ++++.+|+|+|||..+...+-
T Consensus        47 ~~lv~a~TGsGKT~~~~~~~~   67 (391)
T 1xti_A           47 DVLCQAKSGMGKTAVFVLATL   67 (391)
T ss_dssp             CEEEECSSCSSHHHHHHHHHH
T ss_pred             cEEEECCCCCcHHHHHHHHHH
Confidence            599999999999987654443

>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=93.28  E-value=0.31  Score=42.05  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||++++++...
T Consensus        10 ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A           10 RVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            3999999999999999999874

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=93.28  E-value=0.053  Score=49.08  Aligned_cols=24  Identities=38%  Similarity=0.686  Sum_probs=22.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.|++|+||||+++.+++.+..
T Consensus        29 i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           29 ITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHhc
Confidence            899999999999999999998864

>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=93.26  E-value=0.085  Score=44.86  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+++.|++|+|||++++.+...-
T Consensus        10 ~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A           10 KVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            39999999999999999998753

>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=93.24  E-value=0.072  Score=52.66  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+.|.||+|+||||++++++...
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            48999999999999999998743

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=93.23  E-value=0.098  Score=49.85  Aligned_cols=23  Identities=22%  Similarity=0.111  Sum_probs=21.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.||+|+||||+++.+...+.
T Consensus        95 igI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           95 IGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            89999999999999999998765

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=93.19  E-value=0.21  Score=50.06  Aligned_cols=38  Identities=26%  Similarity=0.315  Sum_probs=27.7

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+...+.+..+++++   .+++.||+|+|||..+..++...
T Consensus        95 ~~~Q~~ai~~i~~~~---~~ll~~~TGsGKT~~~l~~i~~~  132 (472)
T 2fwr_A           95 RDYQEKALERWLVDK---RGCIVLPTGSGKTHVAMAAINEL  132 (472)
T ss_dssp             CHHHHHHHHHHTTTT---EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhcC---CEEEEeCCCCCHHHHHHHHHHHc
Confidence            445555555555542   48999999999999988777765

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=93.18  E-value=0.049  Score=48.26  Aligned_cols=23  Identities=26%  Similarity=0.197  Sum_probs=21.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.||+|+||||+++.++..+.
T Consensus         9 i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            9 IGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            88999999999999999999764

>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=93.18  E-value=0.09  Score=47.80  Aligned_cols=25  Identities=20%  Similarity=0.392  Sum_probs=22.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      +.|.|++|+||||.++.+++.+...
T Consensus        30 i~~eG~~GsGKsT~~~~l~~~l~~~   54 (236)
T 3lv8_A           30 IVIEGLEGAGKSTAIQVVVETLQQN   54 (236)
T ss_dssp             EEEEESTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhc
Confidence            8999999999999999999988653

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=93.18  E-value=0.48  Score=43.47  Aligned_cols=17  Identities=29%  Similarity=0.495  Sum_probs=14.8

Q ss_pred             eEEEECCCCCcHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMI   84 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~   84 (456)
                      ++++.+|+|+|||.++.
T Consensus        93 ~~lv~a~TGsGKT~~~~  109 (262)
T 3ly5_A           93 DLLAAAKTGSGKTLAFL  109 (262)
T ss_dssp             CCEECCCTTSCHHHHHH
T ss_pred             cEEEEccCCCCchHHHH
Confidence            58999999999998744

>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=93.13  E-value=0.053  Score=47.53  Aligned_cols=22  Identities=18%  Similarity=0.131  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+.|.|++|+||||+++.+++.
T Consensus        10 ~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A           10 IIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
Confidence            3899999999999999999986

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=93.10  E-value=0.26  Score=51.04  Aligned_cols=22  Identities=18%  Similarity=0.255  Sum_probs=20.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.+.||.|+||||+++.++..+
T Consensus       372 ~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          372 VALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998754

>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=93.10  E-value=0.054  Score=48.66  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||+++.++...
T Consensus        19 i~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           19 YIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhccC
Confidence            8999999999999999999875

>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=93.10  E-value=0.1  Score=54.65  Aligned_cols=39  Identities=38%  Similarity=0.511  Sum_probs=29.1

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++.....+...+.+   +..+++||||||||+++..++..+.
T Consensus       182 n~~Q~~av~~~l~~---~~~li~GppGTGKT~~~~~~i~~l~  220 (624)
T 2gk6_A          182 NHSQVYAVKTVLQR---PLSLIQGPPGTGKTVTSATIVYHLA  220 (624)
T ss_dssp             CHHHHHHHHHHHTC---SEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhcC---CCeEEECCCCCCHHHHHHHHHHHHH
Confidence            45556666666642   3589999999999999888877664

>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase, hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP: b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19 d.315.1.1

Probab=93.09  E-value=0.64  Score=52.17  Aligned_cols=38  Identities=21%  Similarity=0.225  Sum_probs=27.2

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHH
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAAC   87 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~   87 (456)
                      |...+..+...+.++++.+++++||.|+|||.++...+
T Consensus       608 Q~~ai~~il~~~~~g~p~d~ll~~~TGsGKT~val~aa  645 (1151)
T 2eyq_A          608 QAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAA  645 (1151)
T ss_dssp             HHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCcCcEEEECCCCCCHHHHHHHHH
Confidence            44555555555556766679999999999998765433

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=93.09  E-value=0.053  Score=48.60  Aligned_cols=22  Identities=23%  Similarity=0.555  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||+++.++..+
T Consensus        26 ~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           26 LVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            8999999999999999999865

>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=93.07  E-value=0.061  Score=45.65  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=21.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        36 v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           36 VYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8999999999999999999987

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=93.05  E-value=0.058  Score=48.04  Aligned_cols=42  Identities=31%  Similarity=0.457  Sum_probs=29.4

Q ss_pred             ccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q psy12150         38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        38 ky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ..+|+++.+    ..+++.    +..|.  .+.|.||.|+||||+++.++..
T Consensus         4 ~i~pk~~g~----~~~l~~----i~~Ge--~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A            4 VIRPKTLGQ----KHYVDA----IDTNT--IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CCCCCSHHH----HHHHHH----HHHCS--EEEEECCTTSSTTHHHHHHHHH
T ss_pred             ccccCCHhH----HHHHHh----ccCCC--EEEEECCCCCCHHHHHHHHhcC
Confidence            457777643    333333    34332  3889999999999999999875

>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=93.05  E-value=0.14  Score=43.63  Aligned_cols=22  Identities=23%  Similarity=0.461  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++++....
T Consensus        21 i~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           21 LVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999998753

>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=93.03  E-value=0.063  Score=47.16  Aligned_cols=23  Identities=22%  Similarity=0.135  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|+|++|+||||+++.+++.++
T Consensus        15 IgltG~~GSGKSTva~~L~~~lg   37 (192)
T 2grj_A           15 IGVTGKIGTGKSTVCEILKNKYG   37 (192)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhcC
Confidence            88999999999999999999763

>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=93.02  E-value=0.71  Score=43.35  Aligned_cols=24  Identities=29%  Similarity=0.268  Sum_probs=21.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.+.|++|+||||++..++..+..
T Consensus       101 i~i~G~~G~GKTT~~~~la~~~~~  124 (297)
T 1j8m_F          101 IMLVGVQGTGKTTTAGKLAYFYKK  124 (297)
T ss_dssp             EEEECSSCSSTTHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            888999999999999999987753

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=93.02  E-value=0.26  Score=43.72  Aligned_cols=18  Identities=28%  Similarity=0.368  Sum_probs=15.3

Q ss_pred             eEEEECCCCCcHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIA   85 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~   85 (456)
                      ++++.+|+|+|||.+...
T Consensus        43 ~~lv~a~TGsGKT~~~~~   60 (219)
T 1q0u_A           43 SMVGQSQTGTGKTHAYLL   60 (219)
T ss_dssp             CEEEECCSSHHHHHHHHH
T ss_pred             CEEEECCCCChHHHHHHH
Confidence            589999999999997443

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=93.01  E-value=0.16  Score=43.93  Aligned_cols=22  Identities=23%  Similarity=0.363  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++.+...-
T Consensus        26 i~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           26 VCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEECTTSSHHHHHHHHHHCC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            9999999999999999998753

>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=93.00  E-value=0.072  Score=50.32  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=21.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||+|+|||+++..+++.+.
T Consensus        13 i~i~GptgsGKt~la~~La~~~~   35 (316)
T 3foz_A           13 IFLMGPTASGKTALAIELRKILP   35 (316)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEECCCccCHHHHHHHHHHhCC
Confidence            89999999999999999999864

>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=93.00  E-value=0.11  Score=46.03  Aligned_cols=21  Identities=29%  Similarity=0.468  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++..+...
T Consensus        37 i~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           37 VVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EEEECcCCCCHHHHHHHHHcC
Confidence            999999999999999999753

>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=92.90  E-value=0.039  Score=48.79  Aligned_cols=22  Identities=23%  Similarity=0.215  Sum_probs=20.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.|++|+||||+++.+++.+
T Consensus        24 i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           24 IGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             EEEEESTTSSHHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            8899999999999999999864

>1taf_B TFIID TBP associated factor 62; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3

Probab=92.90  E-value=0.3  Score=34.92  Aligned_cols=59  Identities=14%  Similarity=0.074  Sum_probs=48.9

Q ss_pred             HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy12150        203 TRLQYICEQESV-MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (456)
Q Consensus       203 ~~l~~~~~~~~~-~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~  261 (456)
                      +.++.+++.-|+ .+++++...|++...--++++++..-+.+..++++.++.+||..++.
T Consensus        10 ~~v~~iaes~Gi~~lsddaa~~LA~dvEyr~~eI~qeA~kfmrHakRk~Lt~~DI~~Alk   69 (70)
T 1taf_B           10 ESMKVIAESIGVGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             HHHHHHHHHTTCCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             HHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHc
Confidence            345666777788 79999999999988888888888888888777889999999988764

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=92.89  E-value=0.43  Score=48.27  Aligned_cols=38  Identities=8%  Similarity=0.018  Sum_probs=26.6

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+.....+..++.+   .+.++.||+|+|||..+..++...
T Consensus       115 ~~~Q~~ai~~~~~~---~~~ll~~~tGsGKT~~~~~~~~~~  152 (510)
T 2oca_A          115 HWYQKDAVFEGLVN---RRRILNLPTSAGRSLIQALLARYY  152 (510)
T ss_dssp             CHHHHHHHHHHHHH---SEEEEECCSTTTHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhc---CCcEEEeCCCCCHHHHHHHHHHHH
Confidence            34444555555554   358999999999999987666553

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=92.88  E-value=0.034  Score=53.24  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=22.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .++|.||+|+|||+++..+++.+++
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~l~~   66 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAHFPL   66 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTTSCE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHCCC
Confidence            4899999999999999999998753

>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural genomics, structural genomics consortium, SGC, hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*

Probab=92.86  E-value=0.48  Score=42.39  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=17.2

Q ss_pred             eEEEECCCCCcHHHHH-HHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTM-IAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a-~~l~~~l   90 (456)
                      ++++.+|+|+|||.+. -.+...+
T Consensus        63 ~~l~~a~TGsGKT~~~~l~~l~~l   86 (230)
T 2oxc_A           63 DLIVQAKSGTGKTCVFSTIALDSL   86 (230)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHH
Confidence            5899999999999874 3344444

>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=92.86  E-value=0.059  Score=46.83  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=20.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++.+...-
T Consensus        26 i~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           26 IVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            9999999999999999998754

>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=92.85  E-value=0.061  Score=47.63  Aligned_cols=22  Identities=18%  Similarity=0.469  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||+++.++..+
T Consensus        23 ~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           23 VVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            8899999999999999999875

>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=92.85  E-value=0.12  Score=44.28  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++++...-
T Consensus        13 i~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           13 FLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            9999999999999999998753

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=92.83  E-value=0.54  Score=46.92  Aligned_cols=48  Identities=13%  Similarity=0.110  Sum_probs=31.8

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        55 ~~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      ..|.+.+ +|-.+.  ++|.|+||+|||+++..++.......  ..++.++..
T Consensus       185 ~~LD~~l-gGl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g--~~vl~fSlE  234 (444)
T 3bgw_A          185 TELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE  234 (444)
T ss_dssp             HHHHHHH-SSBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTT--CEEEEECSS
T ss_pred             HHHHhhc-CCCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcC--CEEEEEECC
Confidence            3444445 333333  99999999999999999887764332  245555554

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=92.83  E-value=0.035  Score=50.41  Aligned_cols=21  Identities=33%  Similarity=0.385  Sum_probs=18.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|+|+||+|||+++..++..
T Consensus        33 ~~i~G~pG~GKT~l~l~~~~~   53 (251)
T 2zts_A           33 VLLTGGTGTGKTTFAAQFIYK   53 (251)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            999999999999999887644

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=92.81  E-value=0.058  Score=47.69  Aligned_cols=23  Identities=17%  Similarity=0.265  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+++.|++|+|||++++.+...-
T Consensus        30 ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           30 KIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            39999999999999999998753

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=92.80  E-value=0.32  Score=44.29  Aligned_cols=17  Identities=24%  Similarity=0.419  Sum_probs=14.8

Q ss_pred             eEEEECCCCCcHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMI   84 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~   84 (456)
                      ++++.+|+|+|||.+..
T Consensus        82 ~~lv~a~TGsGKT~~~~   98 (249)
T 3ber_A           82 DIIGLAETGSGKTGAFA   98 (249)
T ss_dssp             CEEEECCTTSCHHHHHH
T ss_pred             CEEEEcCCCCCchhHhH
Confidence            59999999999998744

>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=92.79  E-value=0.11  Score=45.61  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .++|.|++|+|||++++++....
T Consensus        28 ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           28 KIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC
Confidence            38999999999999999998754

>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=92.73  E-value=0.099  Score=44.29  Aligned_cols=21  Identities=29%  Similarity=0.431  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++++...
T Consensus        17 i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           17 LVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            899999999999999999864

>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=92.71  E-value=0.11  Score=52.89  Aligned_cols=43  Identities=14%  Similarity=0.101  Sum_probs=31.2

Q ss_pred             cHHHHHHHHHHHh--cCCCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         50 QQEVVSVLKKCLS--GADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        50 ~~~~~~~l~~~l~--~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+++.+.+.+...  ......++|.|.+|+||||+++++++.+..
T Consensus       377 rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          377 YPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             CHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             ChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            4555555666552  222234999999999999999999999964

>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=92.69  E-value=0.2  Score=44.70  Aligned_cols=27  Identities=22%  Similarity=0.265  Sum_probs=23.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      +.|.|++|+||||.++.+++.+.....
T Consensus         9 i~~eG~~gsGKsT~~~~l~~~l~~~~~   35 (213)
T 4edh_A            9 VTLEGPEGAGKSTNRDYLAERLRERGI   35 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTTTC
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence            899999999999999999999865443

>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=92.65  E-value=0.87  Score=45.01  Aligned_cols=25  Identities=28%  Similarity=0.436  Sum_probs=22.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      +.+.|+.|+||||++..++..+...
T Consensus       101 i~i~G~~GsGKTT~~~~LA~~l~~~  125 (425)
T 2ffh_A          101 WFLVGLQGSGKTTTAAKLALYYKGK  125 (425)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHc
Confidence            8888999999999999999987654

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=92.65  E-value=0.14  Score=44.18  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+++.|++|+|||+++.++...-
T Consensus        50 ~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           50 SIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            49999999999999999998753

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=92.61  E-value=0.069  Score=51.23  Aligned_cols=24  Identities=25%  Similarity=0.452  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.||+|+|||+++..+++.+.
T Consensus         9 lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            9 LIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             eEEEECCCcCcHHHHHHHHHHHcC
Confidence            389999999999999999999874

>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=92.53  E-value=0.061  Score=47.90  Aligned_cols=20  Identities=30%  Similarity=0.434  Sum_probs=18.0

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +++.|++|+|||++++.+..
T Consensus        18 i~v~G~~~~GKSsli~~~~~   37 (221)
T 3gj0_A           18 LVLVGDGGTGKTTFVKRHLT   37 (221)
T ss_dssp             EEEEECTTSSHHHHHTTBHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            99999999999999999443

>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=92.52  E-value=0.059  Score=47.44  Aligned_cols=23  Identities=26%  Similarity=0.424  Sum_probs=21.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||+|+|||+++..+++...
T Consensus        37 ilI~GpsGsGKStLA~~La~~g~   59 (205)
T 2qmh_A           37 VLITGDSGVGKSETALELVQRGH   59 (205)
T ss_dssp             EEEECCCTTTTHHHHHHHHTTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            89999999999999999998753

>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=92.47  E-value=0.069  Score=50.57  Aligned_cols=24  Identities=29%  Similarity=0.416  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.||+|+|||+++..+++.+.
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~~   28 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRLN   28 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTT
T ss_pred             EEEEECCCcCCHHHHHHHHHHhCc
Confidence            388999999999999999999864

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.46  E-value=0.063  Score=46.60  Aligned_cols=23  Identities=17%  Similarity=0.322  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+++.|++|+|||++++++...-
T Consensus        20 ki~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           20 KCVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            38999999999999999998763

>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=92.46  E-value=0.074  Score=47.39  Aligned_cols=20  Identities=25%  Similarity=0.331  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +.|.|++|+||||+++.+++
T Consensus         7 I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            7 VALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999999987

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=92.41  E-value=0.081  Score=44.01  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=20.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.+++.|++|+|||++++.+...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45899999999999999999875

>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=92.37  E-value=0.6  Score=49.88  Aligned_cols=22  Identities=23%  Similarity=0.312  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-.
T Consensus       579 ~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          579 VLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             EEEESCSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHhhh
Confidence            8999999999999999988643

>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=92.33  E-value=0.14  Score=55.04  Aligned_cols=39  Identities=38%  Similarity=0.511  Sum_probs=29.1

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++.....+...+.+   +..+++||||||||+++..++..+.
T Consensus       358 n~~Q~~Av~~~l~~---~~~lI~GppGTGKT~ti~~~i~~l~  396 (800)
T 2wjy_A          358 NHSQVYAVKTVLQR---PLSLIQGPPGTGKTVTSATIVYHLA  396 (800)
T ss_dssp             CHHHHHHHHHHHTS---SEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhccC---CeEEEEcCCCCCHHHHHHHHHHHHH
Confidence            45555666666642   3589999999999999888877664

>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane, nucleotide-binding, RNA replication, transmembrane, viral protein; 1.80A {Japanese encephalitis virus} PDB: 2v8o_A 2qeq_A

Probab=92.30  E-value=0.33  Score=48.72  Aligned_cols=22  Identities=23%  Similarity=0.297  Sum_probs=17.1

Q ss_pred             eEEEECCCCCcHHHH-HHHHHHH
Q psy12150         68 HFLFYGPPGTGKTST-MIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~-a~~l~~~   89 (456)
                      ++++.||+|+|||.. +..+...
T Consensus        23 ~vlv~a~TGsGKT~~~~l~il~~   45 (459)
T 2z83_A           23 MTVLDLHPGSGKTRKILPQIIKD   45 (459)
T ss_dssp             EEEECCCTTSCTTTTHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHH
Confidence            599999999999996 4444443

>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=92.25  E-value=0.26  Score=47.11  Aligned_cols=24  Identities=33%  Similarity=0.504  Sum_probs=21.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.|.||+|+||||+++.++..+..
T Consensus       132 i~lvG~nGaGKTTll~~Lag~l~~  155 (328)
T 3e70_C          132 IMFVGFNGSGKTTTIAKLANWLKN  155 (328)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh
Confidence            999999999999999999987643

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=92.19  E-value=0.15  Score=45.91  Aligned_cols=33  Identities=24%  Similarity=0.221  Sum_probs=24.0

Q ss_pred             HHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         60 CLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        60 ~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ...+.+...+.|.|++|+||||.++.+++.+..
T Consensus        15 ~~~~~~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           15 QTQGPGSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             ----CCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             cccCCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            333333333999999999999999999998754

>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=92.17  E-value=0.19  Score=44.13  Aligned_cols=22  Identities=23%  Similarity=0.519  Sum_probs=20.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||+++.++...
T Consensus        22 ~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           22 KILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3999999999999999999864

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A

Probab=92.15  E-value=0.83  Score=44.30  Aligned_cols=20  Identities=30%  Similarity=0.453  Sum_probs=16.3

Q ss_pred             eEEEECCCCCcHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAAC   87 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~   87 (456)
                      ++++.+|+|+|||..+...+
T Consensus        60 ~~li~a~TGsGKT~~~~~~~   79 (400)
T 1s2m_A           60 DILARAKNGTGKTAAFVIPT   79 (400)
T ss_dssp             CEEEECCTTSCHHHHHHHHH
T ss_pred             CEEEECCCCcHHHHHHHHHH
Confidence            48999999999998765444

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=92.13  E-value=0.084  Score=46.13  Aligned_cols=22  Identities=14%  Similarity=0.205  Sum_probs=4.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||+++.++...
T Consensus        22 ~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           22 KVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEC-----------------
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3999999999999999998765

>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=92.10  E-value=0.21  Score=49.95  Aligned_cols=36  Identities=28%  Similarity=0.494  Sum_probs=27.2

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         53 VVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        53 ~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++.|..+.+++   .++|+|++|+|||++++.++....
T Consensus       141 ~ID~L~pi~kGq---~~~i~G~sGvGKTtL~~~l~~~~~  176 (473)
T 1sky_E          141 VVDLLAPYIKGG---KIGLFGGAGVGKTVLIQELIHNIA  176 (473)
T ss_dssp             HHHHHSCEETTC---EEEEECCSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhccCC---EEEEECCCCCCccHHHHHHHhhhh
Confidence            455555555443   489999999999999999887653

>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=92.07  E-value=0.16  Score=43.50  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||++++++...
T Consensus        18 ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           18 RILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3999999999999999998754

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=92.07  E-value=0.56  Score=46.57  Aligned_cols=20  Identities=25%  Similarity=0.263  Sum_probs=16.4

Q ss_pred             eEEEECCCCCcHHHHH-HHHH
Q psy12150         68 HFLFYGPPGTGKTSTM-IAAC   87 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a-~~l~   87 (456)
                      ++++.||+|+|||..+ ..+.
T Consensus         4 ~~lv~a~TGsGKT~~~l~~~l   24 (431)
T 2v6i_A            4 LTVLDLHPGAGKTRRVLPQLV   24 (431)
T ss_dssp             EEEEECCTTSCTTTTHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            5899999999999975 4444

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=92.06  E-value=0.094  Score=46.64  Aligned_cols=24  Identities=21%  Similarity=0.389  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+.|.|++|+|||++++.+++.++
T Consensus         5 ~i~i~G~~gsGkst~~~~l~~~~g   28 (219)
T 2h92_A            5 NIALDGPAAAGKSTIAKRVASELS   28 (219)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            389999999999999999999864

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=92.02  E-value=0.07  Score=47.07  Aligned_cols=22  Identities=23%  Similarity=0.264  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++.+...-
T Consensus        12 i~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A           12 CVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            9999999999999999998653

>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=92.02  E-value=0.082  Score=49.21  Aligned_cols=23  Identities=22%  Similarity=0.296  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|+||+|+|||+++..++..+.
T Consensus        33 ~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           33 GALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHh
Confidence            89999999999999999987654

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19

Probab=92.00  E-value=0.48  Score=46.89  Aligned_cols=36  Identities=22%  Similarity=0.235  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.....+...+.+    ++++.+|+|+|||..+-.++...
T Consensus        12 ~~Q~~~i~~~~~~----~~ll~~~tG~GKT~~~~~~~~~~   47 (494)
T 1wp9_A           12 IYQEVIYAKCKET----NCLIVLPTGLGKTLIAMMIAEYR   47 (494)
T ss_dssp             HHHHHHHHHGGGS----CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhC----CEEEEcCCCCCHHHHHHHHHHHH
Confidence            3344444444443    68999999999999988776554

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.00  E-value=0.45  Score=40.76  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=20.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.+++.|++|+|||+++.++...
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            34999999999999999998865

>4dra_A Centromere protein S; DNA binding complex, DNA damage repair, histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB: 4drb_A

Probab=91.97  E-value=0.25  Score=38.76  Aligned_cols=64  Identities=13%  Similarity=0.014  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCC
Q psy12150        201 MLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIP  264 (456)
Q Consensus       201 l~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~  264 (456)
                      +.++++......+..++++++..|.+.+-.....+-..+...+.-++++.|+.+||.-++.+.+
T Consensus        33 V~rIvke~gaer~~~vS~~ai~aL~El~~~~~~~ia~Dl~~fAkHAgRkTI~~eDV~La~Rr~~   96 (113)
T 4dra_A           33 VGCLCEEVALDKEMQFSKQTIAAISELTFRQCENFAKDLEMFARHAKRTTINTEDVKLLARRSN   96 (113)
T ss_dssp             HHHHHHHHHHHHTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTCH
T ss_pred             HHHHHHHHHHHcCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHhCH
Confidence            3345555555678899999999999988766667777777777777899999999999888763

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=91.97  E-value=0.097  Score=47.69  Aligned_cols=23  Identities=17%  Similarity=0.098  Sum_probs=21.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +-|.||.|+||||+++.++..++
T Consensus        28 igI~G~~GsGKSTl~k~L~~~lG   50 (245)
T 2jeo_A           28 IGVSGGTASGKSTVCEKIMELLG   50 (245)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            88999999999999999998763

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=91.91  E-value=0.056  Score=48.74  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=14.5

Q ss_pred             EEEECCCCCcHHHHHHHHH-HHh
Q psy12150         69 FLFYGPPGTGKTSTMIAAC-HQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~-~~l   90 (456)
                      +.|.||+|+||||+++.++ ..+
T Consensus        30 i~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           30 LVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EEEECSCC----CHHHHHHC---
T ss_pred             EEEECCCCCCHHHHHHHHHhcCC
Confidence            8999999999999999999 754

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=91.90  E-value=0.21  Score=48.18  Aligned_cols=24  Identities=29%  Similarity=0.427  Sum_probs=21.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+.|.|+||+||||+++++...+.
T Consensus        76 ~v~lvG~pgaGKSTLln~L~~~~~   99 (349)
T 2www_A           76 RVGLSGPPGAGKSTFIEYFGKMLT   99 (349)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhh
Confidence            399999999999999999998653

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=91.84  E-value=0.1  Score=47.14  Aligned_cols=23  Identities=17%  Similarity=0.314  Sum_probs=21.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.|++|+||||+++.+++.++
T Consensus        19 i~i~G~~gsGKst~~~~l~~~lg   41 (236)
T 1q3t_A           19 IAIDGPASSGKSTVAKIIAKDFG   41 (236)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999874

>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=91.82  E-value=0.24  Score=46.80  Aligned_cols=24  Identities=29%  Similarity=0.344  Sum_probs=21.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.|.||.|+||||+++.++..+..
T Consensus       105 i~lvG~nGsGKTTll~~Lagll~~  128 (304)
T 1rj9_A          105 VLVVGVNGVGKTTTIAKLGRYYQN  128 (304)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHh
Confidence            889999999999999999987754

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=91.69  E-value=0.19  Score=44.82  Aligned_cols=25  Identities=24%  Similarity=0.238  Sum_probs=22.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      +.|.|++|+||||.++.+++.+...
T Consensus         6 i~~eG~~gsGKsT~~~~l~~~l~~~   30 (213)
T 4tmk_A            6 IVIEGLEGAGKTTARNVVVETLEQL   30 (213)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHc
Confidence            8999999999999999999988654

>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=91.69  E-value=0.84  Score=49.84  Aligned_cols=19  Identities=21%  Similarity=0.350  Sum_probs=17.8

Q ss_pred             EEEECCCCCcHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAAC   87 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~   87 (456)
                      ++|.||.|+||||+++.++
T Consensus       665 ~~ItGpNGsGKSTlLr~ia  683 (934)
T 3thx_A          665 HIITGPNMGGKSTYIRQTG  683 (934)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            8999999999999999884

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=91.62  E-value=0.13  Score=52.34  Aligned_cols=40  Identities=20%  Similarity=0.165  Sum_probs=31.6

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ...+++.+.-.+..+.  .++|.||+|+||||+++++...+.
T Consensus       246 ~~~~l~~l~~~v~~g~--~i~I~GptGSGKTTlL~aL~~~i~  285 (511)
T 2oap_1          246 PSGVLAYLWLAIEHKF--SAIVVGETASGKTTTLNAIMMFIP  285 (511)
T ss_dssp             CHHHHHHHHHHHHTTC--CEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CHHHHHHHHHHHhCCC--EEEEECCCCCCHHHHHHHHHhhCC
Confidence            3456667776777654  499999999999999999988663

>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=91.58  E-value=0.11  Score=44.67  Aligned_cols=24  Identities=29%  Similarity=0.263  Sum_probs=21.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+|+||.|+|||++++++.-.+..
T Consensus        29 ~~i~G~NGsGKStll~ai~~~l~~   52 (182)
T 3kta_A           29 TAIVGANGSGKSNIGDAILFVLGG   52 (182)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcC
Confidence            799999999999999999987654

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=91.57  E-value=0.18  Score=52.27  Aligned_cols=22  Identities=23%  Similarity=0.350  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.+.||.|+||||+++.++..+
T Consensus       372 ~~ivG~sGsGKSTll~~l~g~~  393 (587)
T 3qf4_A          372 VAVLGETGSGKSTLMNLIPRLI  393 (587)
T ss_dssp             EEEECSSSSSHHHHHHTTTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCc
Confidence            8999999999999999988754

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=91.54  E-value=0.21  Score=43.63  Aligned_cols=22  Identities=32%  Similarity=0.540  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .++|.|++|+|||++++++...
T Consensus        27 ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           27 KFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHC-
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            3999999999999999998753

>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=91.54  E-value=0.12  Score=48.89  Aligned_cols=23  Identities=22%  Similarity=0.160  Sum_probs=21.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.||+|+||||+++.++..+.
T Consensus        83 igI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           83 ISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            89999999999999999998764

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=91.54  E-value=0.14  Score=52.98  Aligned_cols=22  Identities=23%  Similarity=0.289  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.+.||.|+||||+++.+...+
T Consensus       370 ~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          370 VAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             EEEECSTTSSHHHHHTTTTTSS
T ss_pred             EEEECCCCChHHHHHHHHhcCC
Confidence            8999999999999999988754

>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=91.50  E-value=1.3  Score=44.73  Aligned_cols=37  Identities=8%  Similarity=-0.020  Sum_probs=27.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      ++|.|+||+|||+++..++..+.... ...++.++...
T Consensus       245 ~li~G~pG~GKT~lal~~a~~~a~~~-g~~vl~~s~E~  281 (503)
T 1q57_A          245 IMVTSGSGMVMSTFVRQQALQWGTAM-GKKVGLAMLEE  281 (503)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHTTTS-CCCEEEEESSS
T ss_pred             EEEeecCCCCchHHHHHHHHHHHHhc-CCcEEEEeccC
Confidence            99999999999999999998775431 12456665543

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=91.47  E-value=0.57  Score=48.75  Aligned_cols=25  Identities=28%  Similarity=0.380  Sum_probs=21.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .|.+.|.||.|+||||++++++...
T Consensus        45 lp~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           45 LPAIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CCCEECCCCTTSCHHHHHHHHHSCC
T ss_pred             CCeEEEECCCCChHHHHHHHHhCCC
Confidence            4559999999999999999998753

>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=91.45  E-value=0.11  Score=48.99  Aligned_cols=22  Identities=41%  Similarity=0.650  Sum_probs=21.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||+++.++..+
T Consensus       129 vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          129 LAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHhhhc
Confidence            8999999999999999999876

>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=91.44  E-value=0.1  Score=48.96  Aligned_cols=23  Identities=17%  Similarity=0.176  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||+|+|||++++.++..+.
T Consensus        38 ~~i~G~~G~GKTTl~~~ia~~~~   60 (296)
T 1cr0_A           38 IMVTSGSGMGKSTFVRQQALQWG   60 (296)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            89999999999999999998764

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=91.39  E-value=0.04  Score=51.83  Aligned_cols=24  Identities=13%  Similarity=0.124  Sum_probs=18.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      -+.|.|++|+||||+++.+++.+.
T Consensus         7 iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            7 IISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            389999999999999999998765

>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=91.38  E-value=0.19  Score=43.66  Aligned_cols=21  Identities=24%  Similarity=0.316  Sum_probs=19.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      .+++.|++|+|||+++..+..
T Consensus        31 ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           31 RILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             EEEEEESTTSSHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            499999999999999999864

>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=91.36  E-value=0.12  Score=45.18  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.|++|+||||+++.+....
T Consensus         8 v~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            8 VVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            8999999999999999998753

>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=91.36  E-value=0.12  Score=49.06  Aligned_cols=23  Identities=22%  Similarity=0.121  Sum_probs=21.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.||+|+||||+++.++..+.
T Consensus        93 vgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           93 IGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCchHHHHHHHHHhhcc
Confidence            89999999999999999998764

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=91.36  E-value=0.2  Score=54.05  Aligned_cols=38  Identities=34%  Similarity=0.489  Sum_probs=26.9

Q ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         50 QQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++.....+...+.   .+.+++.||||||||+++..++..+
T Consensus       362 n~~Q~~Av~~~l~---~~~~lI~GppGTGKT~~i~~~i~~l  399 (802)
T 2xzl_A          362 NSSQSNAVSHVLQ---RPLSLIQGPPGTGKTVTSATIVYHL  399 (802)
T ss_dssp             CHHHHHHHHHHTT---CSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhc---CCCEEEECCCCCCHHHHHHHHHHHH
Confidence            3555556665554   2358999999999999887766544

>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A*

Probab=91.34  E-value=1.2  Score=42.98  Aligned_cols=23  Identities=39%  Similarity=0.495  Sum_probs=17.0

Q ss_pred             eEEEECCCCCcHHHHHH-HHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMI-AACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~-~l~~~l   90 (456)
                      ++++.+|+|+|||.++. .+...+
T Consensus        60 ~~lv~~~TGsGKT~~~~~~~~~~l   83 (394)
T 1fuu_A           60 DVLAQAQSGTGKTGTFSIAALQRI   83 (394)
T ss_dssp             CEEECCCSSHHHHHHHHHHHHHHC
T ss_pred             CEEEECCCCChHHHHHHHHHHHHh
Confidence            48999999999998743 334433

>3v9r_A MHF1, uncharacterized protein YOL086W-A; histone fold, fanconi anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces cerevisiae}

Probab=91.34  E-value=0.22  Score=37.59  Aligned_cols=53  Identities=19%  Similarity=0.168  Sum_probs=43.8

Q ss_pred             cCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCCC
Q psy12150        212 ESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIP  264 (456)
Q Consensus       212 ~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~~  264 (456)
                      .|+.++++++..|.+.+-.....+...++..+.-++++.|+.+||.-++.+.+
T Consensus        29 ~g~~vs~~~i~aL~e~~~~~~~~ia~Dl~~fA~HAgRkTI~~eDV~L~~Rrn~   81 (90)
T 3v9r_A           29 EDIKYTPRFINSLLELAYLQLGEMGSDLQAFARHAGRGVVNKSDLMLYLRKQP   81 (90)
T ss_dssp             SCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTCH
T ss_pred             cCceeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHhCh
Confidence            46889999999999987666666777777777777899999999999887764

>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=91.26  E-value=0.12  Score=50.46  Aligned_cols=23  Identities=30%  Similarity=0.585  Sum_probs=21.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||+|+||||++++++..+.
T Consensus       139 i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          139 ILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhhcC
Confidence            99999999999999999998764

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=91.23  E-value=0.15  Score=44.65  Aligned_cols=23  Identities=22%  Similarity=0.353  Sum_probs=20.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+++.|++|+|||+++..+...-
T Consensus        27 ki~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           27 KLVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            38999999999999999998753

>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=91.21  E-value=0.1  Score=48.67  Aligned_cols=20  Identities=25%  Similarity=0.297  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +.|.|++|+||||+++.+++
T Consensus        78 I~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           78 LGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999999994

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A

Probab=91.19  E-value=1.2  Score=43.43  Aligned_cols=20  Identities=30%  Similarity=0.418  Sum_probs=16.1

Q ss_pred             eEEEECCCCCcHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAAC   87 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~   87 (456)
                      ++++.+|+|+|||.+....+
T Consensus        76 ~~lv~a~TGsGKT~~~~~~~   95 (410)
T 2j0s_A           76 DVIAQSQSGTGKTATFSISV   95 (410)
T ss_dssp             CEEEECCTTSSHHHHHHHHH
T ss_pred             CEEEECCCCCCchHHHHHHH
Confidence            49999999999997655433

>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=91.18  E-value=0.11  Score=45.09  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=20.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.|++|+||||+++.++...
T Consensus        32 v~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           32 VVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            8999999999999999998864

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=91.14  E-value=1.3  Score=41.54  Aligned_cols=21  Identities=19%  Similarity=0.294  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.|.|.||+||||+++++...
T Consensus        10 V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A           10 VAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999999864

>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=91.10  E-value=1.3  Score=47.48  Aligned_cols=21  Identities=24%  Similarity=0.358  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.|.||.|+||||+++.++..
T Consensus       610 ~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          610 LIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            899999999999999998764

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=91.08  E-value=0.098  Score=47.23  Aligned_cols=24  Identities=33%  Similarity=0.515  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.|++|+||||.++.+++.+..
T Consensus        28 I~~eG~~GsGKsT~~~~l~~~l~~   51 (227)
T 3v9p_A           28 ITFEGIDGAGKTTHLQWFCDRLQE   51 (227)
T ss_dssp             EEEECCC---CHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh
Confidence            899999999999999999998853

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=91.07  E-value=0.65  Score=40.94  Aligned_cols=23  Identities=30%  Similarity=0.683  Sum_probs=20.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.+++.|++|+|||+++.++...
T Consensus        30 ~~i~v~G~~~~GKSslin~l~~~   52 (223)
T 4dhe_A           30 PEIAFAGRSNAGKSTAINVLCNQ   52 (223)
T ss_dssp             CEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCC
Confidence            45999999999999999998765

>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=91.07  E-value=0.13  Score=50.32  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=21.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||+|+|||+++..+++.+.
T Consensus         5 i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            5 IVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEECSSSSHHHHHHHHHHHHT
T ss_pred             EEEECcchhhHHHHHHHHHHHCC
Confidence            88999999999999999999874

>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=91.04  E-value=1  Score=40.48  Aligned_cols=17  Identities=24%  Similarity=0.399  Sum_probs=14.9

Q ss_pred             eEEEECCCCCcHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMI   84 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~   84 (456)
                      ++++.+|+|+|||.+..
T Consensus        68 ~~l~~apTGsGKT~~~~   84 (242)
T 3fe2_A           68 DMVGVAQTGSGKTLSYL   84 (242)
T ss_dssp             CEEEEECTTSCHHHHHH
T ss_pred             CEEEECCCcCHHHHHHH
Confidence            58999999999998744

>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=91.00  E-value=0.11  Score=53.17  Aligned_cols=24  Identities=25%  Similarity=0.217  Sum_probs=22.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +++.|.||+||||+++.+++.+..
T Consensus        38 IvlvGlpGSGKSTia~~La~~L~~   61 (520)
T 2axn_A           38 IVMVGLPARGKTYISKKLTRYLNW   61 (520)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            899999999999999999998743

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=90.90  E-value=0.12  Score=46.89  Aligned_cols=23  Identities=13%  Similarity=0.086  Sum_probs=21.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.|++|+||||+++.+++.+.
T Consensus         5 i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            5 LSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHCT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999874

>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=90.88  E-value=0.11  Score=47.24  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-+
T Consensus        34 ~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           34 VSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            8999999999999999998654

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=90.87  E-value=0.075  Score=45.74  Aligned_cols=25  Identities=20%  Similarity=0.208  Sum_probs=22.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+.|.|++|+||||+++.+...+..
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhh
Confidence            4789999999999999999998754

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=90.87  E-value=0.13  Score=46.84  Aligned_cols=23  Identities=22%  Similarity=0.400  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .+.|.||.|+||||+++.++.-+
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48899999999999999998754

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=90.74  E-value=1.6  Score=48.22  Aligned_cols=52  Identities=15%  Similarity=0.018  Sum_probs=29.0

Q ss_pred             CcchhccCCCCccccc--ccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHH
Q psy12150         33 VPWVEKYRPKTIDDVI--EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAAC   87 (456)
Q Consensus        33 ~~w~eky~P~~~~~iv--g~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~   87 (456)
                      .||.+...|.....+.  -.+.....+..... +  .++++.+|+|+|||..+....
T Consensus        69 ~~~~~~~~p~~~~~~~f~L~~~Q~eai~~l~~-g--~~vLV~apTGSGKTlva~lai  122 (1010)
T 2xgj_A           69 TPIAEHKRVNEARTYPFTLDPFQDTAISCIDR-G--ESVLVSAHTSAGKTVVAEYAI  122 (1010)
T ss_dssp             CCGGGCCCSSCSCCCSSCCCHHHHHHHHHHHH-T--CEEEEECCTTSCHHHHHHHHH
T ss_pred             CCCCcccChhhHHhCCCCCCHHHHHHHHHHHc-C--CCEEEECCCCCChHHHHHHHH
Confidence            4565555453311111  12333334444333 3  259999999999999875433

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=90.11  E-value=0.046  Score=47.98  Aligned_cols=23  Identities=22%  Similarity=0.284  Sum_probs=19.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      -.+++.|++|+|||+++..+...
T Consensus        31 ~ki~v~G~~~~GKSsli~~l~~~   53 (204)
T 3th5_A           31 IKCVVVGDGAVGKTCLLISYTTN   53 (204)
Confidence            34999999999999999888754

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=90.68  E-value=0.15  Score=48.08  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=21.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.||.|+||||+++.++..+.
T Consensus       103 i~lvG~nGsGKTTll~~Lag~l~  125 (302)
T 3b9q_A          103 IMIVGVNGGGKTTSLGKLAHRLK  125 (302)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            89999999999999999998764

>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=90.66  E-value=0.17  Score=52.21  Aligned_cols=23  Identities=22%  Similarity=0.161  Sum_probs=21.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.|.+|+||||+++.+++.+.
T Consensus       399 I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          399 IFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEeecCCCCCHHHHHHHHHHHhc
Confidence            89999999999999999999875

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=90.66  E-value=0.17  Score=45.69  Aligned_cols=24  Identities=21%  Similarity=0.328  Sum_probs=21.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +-|.|+||+||||.++.+++.++.
T Consensus        11 ~~~~G~pGsGKsT~a~~L~~~~g~   34 (230)
T 3gmt_A           11 LILLGAPGAGKGTQANFIKEKFGI   34 (230)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             eeeECCCCCCHHHHHHHHHHHhCC
Confidence            789999999999999999998753

>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=90.64  E-value=0.12  Score=44.42  Aligned_cols=21  Identities=24%  Similarity=0.491  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      .++|.|++|+|||++++.++.
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            389999999999999999876

>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=90.63  E-value=1.2  Score=48.63  Aligned_cols=20  Identities=25%  Similarity=0.380  Sum_probs=18.4

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      ++|.||.|+||||+.+.++.
T Consensus       676 ~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          676 MIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             EEEESCCCHHHHHHHHHHHH
T ss_pred             EEEECCCCCchHHHHHHHHH
Confidence            89999999999999998764

>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=90.56  E-value=0.15  Score=42.97  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||++++++...
T Consensus         6 ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCccHHHHHHHHhcC
Confidence            3899999999999999998754

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=90.55  E-value=0.11  Score=46.84  Aligned_cols=22  Identities=18%  Similarity=0.241  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-+
T Consensus        33 ~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           33 VSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             EEEEECTTSCHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8899999999999999998654

>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=90.54  E-value=0.15  Score=42.94  Aligned_cols=21  Identities=24%  Similarity=0.426  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.+.|++|+|||++++++...
T Consensus         6 v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            6 IALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999999863

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=90.53  E-value=0.15  Score=49.57  Aligned_cols=35  Identities=26%  Similarity=0.376  Sum_probs=27.1

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        55 ~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.+.-.++.|.  .++|.||+|+||||++++++..+.
T Consensus       166 ~~l~~~i~~G~--~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          166 SFLRRAVQLER--VIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             HHHHHHHHTTC--CEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             HHHHHHHhcCC--EEEEECCCCCCHHHHHHHHHhcCC
Confidence            44544555553  489999999999999999998654

>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=90.51  E-value=0.12  Score=46.07  Aligned_cols=22  Identities=36%  Similarity=0.551  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        38 ~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           38 VNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8899999999999999998754

>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=90.50  E-value=0.28  Score=44.76  Aligned_cols=34  Identities=29%  Similarity=0.429  Sum_probs=26.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEee
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELN  103 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n  103 (456)
                      +++.|.+|+||||++..++..+. ...+.-++..+
T Consensus        17 ~~~~GkgGvGKTTl~~~La~~l~-~g~~v~vvd~D   50 (262)
T 1yrb_A           17 VVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNLD   50 (262)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEECC
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHH-CCCeEEEEeCC
Confidence            89999999999999999998876 44433344433

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=90.47  E-value=0.25  Score=50.72  Aligned_cols=43  Identities=19%  Similarity=0.176  Sum_probs=30.7

Q ss_pred             cHHHHHHHHHHHh--cCCCCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         50 QQEVVSVLKKCLS--GADLPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        50 ~~~~~~~l~~~l~--~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.++...++....  ......++|.|++|+||||+++.+++.+..
T Consensus       354 r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~~  398 (546)
T 2gks_A          354 RPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQA  398 (546)
T ss_dssp             CHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhhh
Confidence            3455566666652  222223899999999999999999998753

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=90.47  E-value=0.17  Score=44.71  Aligned_cols=28  Identities=11%  Similarity=0.008  Sum_probs=24.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      .+.|.|++|+|||++++.+++.++...+
T Consensus         8 iI~i~g~~GsGk~ti~~~la~~lg~~~~   35 (201)
T 3fdi_A            8 IIAIGREFGSGGHLVAKKLAEHYNIPLY   35 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTTCCEE
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCcCEE
Confidence            3899999999999999999999865433

>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=90.44  E-value=0.12  Score=46.88  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        34 ~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           34 VAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHTTCS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998754

>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=90.40  E-value=0.17  Score=42.41  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++++...
T Consensus         9 i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            9 VVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECcCCCCHHHHHHHHHcC
Confidence            899999999999999999865

>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=90.39  E-value=1.3  Score=41.69  Aligned_cols=21  Identities=19%  Similarity=0.317  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.+.|.||+||||++.++...
T Consensus        13 v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A           13 VAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            999999999999999999864

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=90.39  E-value=0.21  Score=42.18  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=20.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ..+++.|++|+|||++++++...
T Consensus         9 ~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            9 PVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            34999999999999999999764

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=90.37  E-value=0.15  Score=43.76  Aligned_cols=22  Identities=23%  Similarity=0.329  Sum_probs=20.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .++|.|++|+|||+++..+.+.
T Consensus        18 gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           18 GVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc
Confidence            3999999999999999999884

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=90.36  E-value=0.16  Score=45.47  Aligned_cols=25  Identities=28%  Similarity=0.215  Sum_probs=22.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+.|.|++|+||||.++.+++.+..
T Consensus         7 ~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            7 LILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3899999999999999999999854

>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=90.31  E-value=0.18  Score=42.09  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=21.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+|+||.|+|||+++.++.-.+.+
T Consensus        26 ~~I~G~NGsGKStil~Ai~~~l~g   49 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAILVGLYW   49 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcC
Confidence            899999999999999999887644

>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=90.22  E-value=0.29  Score=55.77  Aligned_cols=23  Identities=17%  Similarity=0.244  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.||.|+||||+++.+...+.
T Consensus       447 vaivG~sGsGKSTll~ll~~~~~  469 (1321)
T 4f4c_A          447 VALVGSSGCGKSTIISLLLRYYD  469 (1321)
T ss_dssp             EEEEECSSSCHHHHHHHHTTSSC
T ss_pred             EEEEecCCCcHHHHHHHhccccc
Confidence            89999999999999999988653

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=90.13  E-value=0.44  Score=50.64  Aligned_cols=20  Identities=30%  Similarity=0.468  Sum_probs=16.8

Q ss_pred             CeEEEECCCCCcHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMIAA   86 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l   86 (456)
                      .++++.||+|+|||+.+...
T Consensus        47 ~~~lv~apTGsGKT~~~~l~   66 (715)
T 2va8_A           47 NRLLLTSPTGSGKTLIAEMG   66 (715)
T ss_dssp             CCEEEECCTTSCHHHHHHHH
T ss_pred             CcEEEEcCCCCcHHHHHHHH
Confidence            35999999999999998443

>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=90.09  E-value=0.16  Score=44.05  Aligned_cols=21  Identities=24%  Similarity=0.256  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++++|++|+|||++++.++..
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            689999999999999999865

>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=90.08  E-value=0.81  Score=43.94  Aligned_cols=86  Identities=13%  Similarity=0.171  Sum_probs=66.4

Q ss_pred             HHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcccCCCchHHHHHhh---hCChHHHHHHHHHHHHcCCCHHH
Q psy12150        321 ALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYSATQ  397 (456)
Q Consensus       321 ~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~d  397 (456)
                      ++..+...+.|++|.+.+.++.+.... +..|+.+++.+.++......+.++++   .++...+...++.+...|.+...
T Consensus       202 a~~~l~~~~~G~~r~~~~~l~~~~~~~-~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~g~~~~~  280 (373)
T 1jr3_A          202 ALQLLARAAEGSLRDALSLTDQAIASG-DGQVSTQAVSAMLGTLDDDQALSLVEAMVEANGERVMALINEAAARGIEWEA  280 (373)
T ss_dssp             HHHHHHHHSSSCHHHHHHHHHHHHHHT-TTCBCHHHHHHHTTCCCHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHhc-CCcccHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCHHH
Confidence            355566778999999999998775432 34688888999999887776666654   47888888899999999999988


Q ss_pred             HHHHHHHHHh
Q psy12150        398 LFDQFHDIVM  407 (456)
Q Consensus       398 i~~~l~~~~~  407 (456)
                      ++..+...+.
T Consensus       281 ~l~~l~~~~r  290 (373)
T 1jr3_A          281 LLVEMLGLLH  290 (373)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8777755443

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=90.08  E-value=0.66  Score=43.72  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|++|+|||++...+...
T Consensus         6 I~lvG~~~vGKSSLi~~l~~~   26 (307)
T 3r7w_A            6 LLLMGRSGSGKSSMRSIIFSN   26 (307)
T ss_dssp             EEEECCTTSSHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999998754

>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=89.99  E-value=0.17  Score=42.42  Aligned_cols=22  Identities=23%  Similarity=0.519  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||++++.+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            5 KILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            3899999999999999999864

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=89.97  E-value=0.14  Score=47.22  Aligned_cols=22  Identities=18%  Similarity=0.291  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-+
T Consensus        35 ~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           35 ISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8899999999999999998754

>1taf_A TFIID TBP associated factor 42; transcription initiation, histone fold, complex (TWO transcr factors); 2.00A {Drosophila melanogaster} SCOP: a.22.1.3

Probab=89.95  E-value=0.71  Score=32.78  Aligned_cols=59  Identities=15%  Similarity=0.055  Sum_probs=46.3

Q ss_pred             HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy12150        203 TRLQYICEQESV-MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (456)
Q Consensus       203 ~~l~~~~~~~~~-~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~  261 (456)
                      ..+..+++..|+ .+++.+...|.+........+.......+..++++.|+.+||+-++.
T Consensus         5 ~~i~~iLk~~G~~~~~~~v~~~L~e~~~ry~~~il~dA~~~a~HAgrktv~~eDVkLAi~   64 (68)
T 1taf_A            5 QVIMSILKELNVQEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATE   64 (68)
T ss_dssp             HHHHHHHHHTTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            456778888887 68999999999887666666666666666667899999999987764

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=89.92  E-value=0.17  Score=46.95  Aligned_cols=22  Identities=18%  Similarity=0.350  Sum_probs=20.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||+++.++...
T Consensus         5 v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            5 IMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999999865

>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=89.88  E-value=0.17  Score=46.29  Aligned_cols=21  Identities=24%  Similarity=0.396  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.|.||.|+||||+++.++..
T Consensus        32 ~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           32 HALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            889999999999999999985

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=89.86  E-value=0.73  Score=46.09  Aligned_cols=24  Identities=21%  Similarity=0.368  Sum_probs=20.5

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+.++|.|.||+||||+..++...
T Consensus        23 ~~~V~lvG~~nvGKSTL~n~l~~~   46 (456)
T 4dcu_A           23 KPVVAIVGRPNVGKSTIFNRIAGE   46 (456)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHEEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            345999999999999999998653

>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA helicase, acetyltransferase, GCN5 acetyltransferase; HET: ACO ADP; 2.35A {Escherichia coli K12}

Probab=89.85  E-value=1.1  Score=46.82  Aligned_cols=81  Identities=14%  Similarity=0.105  Sum_probs=49.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCC--CCCCCcEEEEEcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDG--KPCPPFKIVILDE  145 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~--~~~~~~~iviIDE  145 (456)
                      ..+|+|++|.|||+++-.++..+...      ..+.+........+.+...    .......+..  ..+....+|||||
T Consensus       194 ~~vlta~RGRGKSa~lG~~~a~~~~~------~~vtAP~~~a~~~l~~~~~----~~i~~~~Pd~~~~~~~~~dlliVDE  263 (671)
T 2zpa_A          194 VAAVTAARGRGKSALAGQLISRIAGR------AIVTAPAKASTDVLAQFAG----EKFRFIAPDALLASDEQADWLVVDE  263 (671)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHSSSC------EEEECSSCCSCHHHHHHHG----GGCCBCCHHHHHHSCCCCSEEEEET
T ss_pred             eEEEecCCCCCHHHHHHHHHHHHHhC------cEEECCCHHHHHHHHHHhh----CCeEEeCchhhhhCcccCCEEEEEc
Confidence            48999999999999999999887532      2444555455554444322    1111111110  0112345999999


Q ss_pred             CCCccHHHHHHHH
Q psy12150        146 ADSMTHAAQAALR  158 (456)
Q Consensus       146 ~d~l~~~~~~~Ll  158 (456)
                      +-.+.......|+
T Consensus       264 AAaIp~pll~~ll  276 (671)
T 2zpa_A          264 AAAIPAPLLHQLV  276 (671)
T ss_dssp             GGGSCHHHHHHHH
T ss_pred             hhcCCHHHHHHHH
Confidence            9999876555444

>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=89.81  E-value=0.079  Score=48.84  Aligned_cols=24  Identities=13%  Similarity=0.014  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.|++|+||||+++.+++.+.
T Consensus        26 ~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           26 KISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            489999999999999999998863

>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=89.80  E-value=0.19  Score=42.13  Aligned_cols=21  Identities=19%  Similarity=0.298  Sum_probs=18.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      .+++.|++|+|||++++.+..
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            389999999999999999863

>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding, viral nucleoprotein, endoplasmic reticulum, helicase, hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A 2bhr_A

Probab=89.79  E-value=0.79  Score=45.72  Aligned_cols=20  Identities=25%  Similarity=0.326  Sum_probs=15.2

Q ss_pred             eEEEECCCCCcHHHH-HHHHH
Q psy12150         68 HFLFYGPPGTGKTST-MIAAC   87 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~-a~~l~   87 (456)
                      .+++.||+|+|||.. +-.+.
T Consensus        21 ~~lv~a~TGsGKT~~~~~~~l   41 (451)
T 2jlq_A           21 LTIMDLHPGAGKTKRILPSIV   41 (451)
T ss_dssp             EEEECCCTTSSCCTTHHHHHH
T ss_pred             eEEEECCCCCCHhhHHHHHHH
Confidence            369999999999993 44443

>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=89.79  E-value=0.18  Score=46.69  Aligned_cols=41  Identities=20%  Similarity=0.338  Sum_probs=27.9

Q ss_pred             CcEEEEEcCCC-CccHHHHHHHHHHHHhccC-cceEEEEecCc
Q psy12150        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETK-STRFCLICNYV  177 (456)
Q Consensus       137 ~~~iviIDE~d-~l~~~~~~~Ll~~le~~~~-~~~lIl~~~~~  177 (456)
                      +.+++++||.- .|.......+.+++.+... ...+|+++.+.
T Consensus       182 ~p~lLlLDEPts~LD~~~~~~l~~~l~~l~~~g~tviivtHd~  224 (267)
T 2zu0_C          182 EPELCILDESDSGLDIDALKVVADGVNSLRDGKRSFIIVTHYQ  224 (267)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHTTCCSSCEEEEECSSG
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEeeCH
Confidence            44699999974 5777777888888876532 34455666654

>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=89.76  E-value=0.15  Score=47.42  Aligned_cols=22  Identities=23%  Similarity=0.241  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-+
T Consensus        37 ~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           37 TAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999998754

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=89.75  E-value=0.19  Score=42.01  Aligned_cols=22  Identities=23%  Similarity=0.454  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||++++++...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3899999999999999999864

>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=89.75  E-value=0.15  Score=46.40  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        31 ~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           31 IAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998754

>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=89.75  E-value=0.15  Score=46.91  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-+
T Consensus        36 ~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           36 TLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8899999999999999998754

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=89.70  E-value=0.48  Score=41.55  Aligned_cols=27  Identities=22%  Similarity=0.242  Sum_probs=23.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      +.|-|..|+||||.++.+++.+.....
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g~   29 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRGK   29 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            578899999999999999998865443

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=89.67  E-value=0.18  Score=45.32  Aligned_cols=24  Identities=13%  Similarity=-0.071  Sum_probs=22.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.|.|++|||||++++.+++.++.
T Consensus        17 I~i~g~~gsGk~~i~~~la~~lg~   40 (223)
T 3hdt_A           17 ITIEREYGSGGRIVGKKLAEELGI   40 (223)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHTC
T ss_pred             EEEeCCCCCCHHHHHHHHHHHcCC
Confidence            899999999999999999999864

>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=89.64  E-value=0.16  Score=46.51  Aligned_cols=22  Identities=18%  Similarity=0.200  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        38 ~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           38 IGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998754

>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=89.63  E-value=0.16  Score=45.83  Aligned_cols=22  Identities=32%  Similarity=0.507  Sum_probs=20.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        37 ~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           37 LAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8899999999999999998765

>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix, antiparallel-coiled-COI domain, ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces cerevisiae}

Probab=89.63  E-value=0.96  Score=50.52  Aligned_cols=21  Identities=24%  Similarity=0.142  Sum_probs=17.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      ++++.||+|+|||..+...+.
T Consensus       201 dvLV~ApTGSGKTlva~l~i~  221 (1108)
T 3l9o_A          201 SVLVSAHTSAGKTVVAEYAIA  221 (1108)
T ss_dssp             CEEEECCSSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCChHHHHHHHHH
Confidence            599999999999998755443

>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=89.63  E-value=0.16  Score=49.15  Aligned_cols=22  Identities=23%  Similarity=0.359  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-.
T Consensus        33 ~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           33 LFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCchHHHHHHHHhcCC
Confidence            8899999999999999999754

>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=89.62  E-value=0.16  Score=46.26  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        35 ~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           35 VTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8899999999999999998754

>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=89.62  E-value=0.21  Score=41.85  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .+++.|++|+|||+++.++...
T Consensus         9 ~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            9 RILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3999999999999999999764

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=89.53  E-value=0.72  Score=47.91  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=20.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.+.||.|+||||+++.++..+
T Consensus       384 ~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          384 VALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             EEEECCTTSSTTHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCc
Confidence            8999999999999999998754

>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=89.52  E-value=0.16  Score=46.87  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        53 ~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           53 VVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEcCCCCcHHHHHHHHHcCC
Confidence            8899999999999999998754

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*

Probab=89.49  E-value=1.5  Score=44.43  Aligned_cols=22  Identities=36%  Similarity=0.650  Sum_probs=17.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++++.+|+|+|||..+...+..
T Consensus        24 ~~l~~~~tGsGKT~~~~~~~~~   45 (556)
T 4a2p_A           24 NALICAPTGSGKTFVSILICEH   45 (556)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEcCCCChHHHHHHHHHHH
Confidence            5899999999999887655543

>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=89.48  E-value=0.21  Score=43.11  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=20.8

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ...+++.|++|+|||+++..+...
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            345999999999999999999754

>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=89.44  E-value=0.18  Score=48.86  Aligned_cols=23  Identities=13%  Similarity=0.141  Sum_probs=21.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.||+|+||||+++.++..+.
T Consensus       173 ~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          173 VAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             EEEECCTTSHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            89999999999999999998754

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=89.43  E-value=0.19  Score=42.46  Aligned_cols=21  Identities=24%  Similarity=0.363  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++++...
T Consensus         9 i~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            9 IVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEECcCCCCHHHHHHHHHhC
Confidence            999999999999999998854

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=89.43  E-value=0.22  Score=51.21  Aligned_cols=24  Identities=29%  Similarity=0.483  Sum_probs=22.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.|.|++|+||||++++++..+..
T Consensus       372 I~LiG~sGSGKSTLar~La~~L~~  395 (552)
T 3cr8_A          372 VFFTGLSGAGKSTLARALAARLME  395 (552)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCChHHHHHHHHHHhhcc
Confidence            899999999999999999998853

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=89.42  E-value=0.22  Score=48.19  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=21.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.||.|+||||+++.++..+.
T Consensus       160 i~lvG~nGsGKTTll~~Lag~l~  182 (359)
T 2og2_A          160 IMIVGVNGGGKTTSLGKLAHRLK  182 (359)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEEcCCCChHHHHHHHHHhhcc
Confidence            89999999999999999998764

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=89.41  E-value=0.21  Score=42.84  Aligned_cols=21  Identities=24%  Similarity=0.426  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|++|+|||++++++...
T Consensus        10 i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A           10 IALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEECSTTSSHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            999999999999999999863

>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=89.37  E-value=0.22  Score=42.93  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=20.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .++|.|++|+|||++++++...-
T Consensus        27 ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           27 KVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            39999999999999999998753

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=89.35  E-value=0.23  Score=47.32  Aligned_cols=24  Identities=29%  Similarity=0.512  Sum_probs=21.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.+.|++|+||||++..++..+..
T Consensus       108 I~ivG~~G~GKTT~~~~LA~~l~~  131 (320)
T 1zu4_A          108 FMLVGVNGTGKTTSLAKMANYYAE  131 (320)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            899999999999999999987753

>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=89.28  E-value=0.18  Score=46.25  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        29 ~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           29 LHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            8899999999999999998754

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=89.27  E-value=0.25  Score=47.37  Aligned_cols=23  Identities=35%  Similarity=0.393  Sum_probs=21.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.|++|+||||++++++..+.
T Consensus        58 v~i~G~~GaGKSTLl~~l~g~~~   80 (337)
T 2qm8_A           58 VGITGVPGVGKSTTIDALGSLLT   80 (337)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhhh
Confidence            99999999999999999997653

>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=89.24  E-value=0.18  Score=46.43  Aligned_cols=22  Identities=36%  Similarity=0.614  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        44 ~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           44 FGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998754

>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=89.22  E-value=0.21  Score=42.29  Aligned_cols=21  Identities=24%  Similarity=0.400  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++++...
T Consensus        12 i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A           12 LVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            999999999999999999875

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=89.16  E-value=0.18  Score=46.54  Aligned_cols=22  Identities=18%  Similarity=0.261  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        49 ~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           49 CALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhccC
Confidence            8999999999999999998754

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=89.15  E-value=0.18  Score=46.86  Aligned_cols=42  Identities=21%  Similarity=0.322  Sum_probs=27.9

Q ss_pred             CCcEEEEEcCCC-CccHHHHHHHHHHHHhccC--cceEEEEecCc
Q psy12150        136 PPFKIVILDEAD-SMTHAAQAALRRTMEKETK--STRFCLICNYV  177 (456)
Q Consensus       136 ~~~~iviIDE~d-~l~~~~~~~Ll~~le~~~~--~~~lIl~~~~~  177 (456)
                      .+.+++++||.- .|.......+.+.|.+...  ...+|+++.+.
T Consensus       173 ~~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~g~tviivtHd~  217 (271)
T 2ixe_A          173 RKPRLLILDNATSALDAGNQLRVQRLLYESPEWASRTVLLITQQL  217 (271)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHCTTTTTSEEEEECSCH
T ss_pred             cCCCEEEEECCccCCCHHHHHHHHHHHHHHHhhcCCEEEEEeCCH
Confidence            345699999964 5667777778887776532  34455666654

>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=89.15  E-value=0.18  Score=46.67  Aligned_cols=22  Identities=27%  Similarity=0.449  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-+
T Consensus        40 ~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           40 VAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            8899999999999999998754

>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA helicase, DEAD-BOX, ATP-binding, HE hydrolase, mitochondrion; HET: ANP; 1.90A {Saccharomyces cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A* 4db2_A 4db4_A

Probab=89.14  E-value=2.7  Score=42.93  Aligned_cols=17  Identities=29%  Similarity=0.372  Sum_probs=14.6

Q ss_pred             CeEEEECCCCCcHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTM   83 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a   83 (456)
                      .++++.+|+|+|||.+.
T Consensus       112 ~~~lv~apTGsGKTl~~  128 (563)
T 3i5x_A          112 HDVIARAKTGTGKTFAF  128 (563)
T ss_dssp             EEEEEECCTTSCHHHHH
T ss_pred             CeEEEECCCCCCccHHH
Confidence            35999999999999853

>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=89.12  E-value=0.2  Score=48.42  Aligned_cols=22  Identities=32%  Similarity=0.588  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+.+.++.-.
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           32 VALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHHCCC
Confidence            8899999999999999999754

>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=89.06  E-value=0.19  Score=42.77  Aligned_cols=21  Identities=29%  Similarity=0.419  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      .+++.|++|+|||+++..+..
T Consensus        20 ~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           20 RILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             EEEEEEETTSSHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            499999999999999988863

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=89.06  E-value=0.18  Score=46.97  Aligned_cols=22  Identities=27%  Similarity=0.458  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++..+
T Consensus        50 ~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           50 WILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            8899999999999999998754

>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=89.06  E-value=0.25  Score=42.57  Aligned_cols=22  Identities=14%  Similarity=0.070  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.|++|+|||+++..+...-
T Consensus        23 i~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           23 VGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEECCTTSCHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            9999999999999999888754

---

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	456
d1iqpa2	231	c.37.1.20 (A:2-232) Replication factor C {Archaeon	3e-49
d1iqpa2	231	c.37.1.20 (A:2-232) Replication factor C {Archaeon	5e-06
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	7e-49
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	4e-05
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	9e-48
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	0.001
d1sxjb2	224	c.37.1.20 (B:7-230) Replication factor C4 {Baker's	3e-47
d1sxjb2	224	c.37.1.20 (B:7-230) Replication factor C4 {Baker's	7e-05
d1sxjc2	227	c.37.1.20 (C:12-238) Replication factor C3 {Baker'	4e-45
d1sxjc2	227	c.37.1.20 (C:12-238) Replication factor C3 {Baker'	2e-05
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	2e-32
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	9e-04
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	3e-32
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	1e-05
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	1e-27
d2gnoa2	198	c.37.1.20 (A:11-208) gamma subunit of DNA polymera	3e-26
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	5e-26
d1sxjd1	91	a.80.1.1 (D:263-353) Replication factor C2 {Baker'	2e-17
d1sxjd1	91	a.80.1.1 (D:263-353) Replication factor C2 {Baker'	4e-07
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	9e-17
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	7e-16
d1sxjc1	95	a.80.1.1 (C:239-333) Replication factor C3 {Baker'	2e-14
d1sxjb1	92	a.80.1.1 (B:231-322) Replication factor C4 {Baker'	3e-13
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	4e-13
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	3e-11
d1iqpa1	95	a.80.1.1 (A:233-327) Replication factor C {Archaeo	5e-11
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	3e-05
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	2e-04
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	0.001
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	0.002

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 231

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]

 Score =  165 bits (419), Expect = 3e-49
 Identities = 107/227 (47%), Positives = 145/227 (63%), Gaps = 9/227 (3%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD 93
           PWVEKYRP+ +DD++ Q+ +V  LK  +    +PH LF GPPG GKT+  +A   +LFG+
Sbjct: 13  PWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE 72

Query: 94  MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA 153
            +R   LELNASD+RGI VIR+KVK FA+    G          FKI+ LDEAD++T  A
Sbjct: 73  NWRHNFLELNASDERGINVIREKVKEFARTKPIGGAS-------FKIIFLDEADALTQDA 125

Query: 154 QAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQES 213
           Q ALRRTME  + + RF L CNY S II+P+ SRC+ FRF+PL +  +  RL+YI E E 
Sbjct: 126 QQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEG 185

Query: 214 VMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT 260
           +    + L+ ++  + GDMRRAI  LQ+ A L   + I +E+V  V 
Sbjct: 186 LELTEEGLQAILYIAEGDMRRAINILQAAAAL--DKKITDENVFMVA 230

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 231

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]

 Score = 45.3 bits (106), Expect = 5e-06
 Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 2/42 (4%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT 361
           + L+ ++  + GDMRRAI  LQ+ A L   + I +E+V  V 
Sbjct: 191 EGLQAILYIAEGDMRRAINILQAAAAL--DKKITDENVFMVA 230

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237

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]

 Score =  165 bits (417), Expect = 7e-49
 Identities = 134/237 (56%), Positives = 171/237 (72%), Gaps = 8/237 (3%)

Query: 34  PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG- 92
           PWVEKYRPK +D+V  Q   V+VLKK L  A+LPH LFYGPPGTGKTST++A   +L+G 
Sbjct: 1   PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGP 60

Query: 93  DMYRERILELNASDDRGIQVIRDKVKTFAQQTASG---FNQDGKPCPPFKIVILDEADSM 149
           D+ + RILELNASD+RGI ++R+KVK FA+ T S     + +  PCPP+KI+ILDEADSM
Sbjct: 61  DLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSM 120

Query: 150 THAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYIC 209
           T  AQ+ALRRTME  +  TRFCLICNYV+ II PL S+CSKFRFK L  +  + RL++I 
Sbjct: 121 TADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFIS 180

Query: 210 EQESVMCDFKALETLVETSGGDMRRAITCLQSCAR----LKGGEGIVNEDVLEVTGV 262
           EQE+V CD   LE +++ S GD+RR IT LQS ++    L  G+ I +  V E+ GV
Sbjct: 181 EQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGV 237

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237

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]

 Score = 42.4 bits (98), Expect = 4e-05
 Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 4/48 (8%)

Query: 320 KALETLVETSGGDMRRAITCLQSCAR----LKGGEGIVNEDVLEVTGV 363
             LE +++ S GD+RR IT LQS ++    L  G+ I +  V E+ GV
Sbjct: 190 GVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGV 237

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} 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: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score =  162 bits (410), Expect = 9e-48
 Identities = 55/245 (22%), Positives = 103/245 (42%), Gaps = 30/245 (12%)

Query: 37  EKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY 95
            K+RP+T  DV+ Q+ V++ L   LS   + H +LF G  G GKTS        L  +  
Sbjct: 4   RKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETG 63

Query: 96  RER-------------------ILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCP 136
                                 ++E++A+    ++  RD +       A G         
Sbjct: 64  ITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARG--------- 114

Query: 137 PFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPL 196
            FK+ ++DE   ++  +  AL +T+E+  +  +F L       +   + SRC +F  K L
Sbjct: 115 RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKAL 174

Query: 197 AENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDV 256
               +  +L++I  +E +  + +AL+ L   + G +R A++          G+ +  + V
Sbjct: 175 DVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQ-VSTQAV 233

Query: 257 LEVTG 261
             + G
Sbjct: 234 SAMLG 238

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} 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: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 9/43 (20%), Positives = 19/43 (44%), Gaps = 1/43 (2%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG 362
           +AL+ L   + G +R A++          G+ +  + V  + G
Sbjct: 197 RALQLLARAAEGSLRDALSLTDQAIASGDGQ-VSTQAVSAMLG 238

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 224

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]

 Score =  160 bits (405), Expect = 3e-47
 Identities = 98/231 (42%), Positives = 140/231 (60%), Gaps = 10/231 (4%)

Query: 32  PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF 91
            +PWVEKYRP+ + D++  +E +  L++     ++PH +  G PG GKT+++    H+L 
Sbjct: 2   QLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELL 61

Query: 92  GDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH 151
           G  Y + +LELNASDDRGI V+R+++K FA        +   P    KIVILDEADSMT 
Sbjct: 62  GRSYADGVLELNASDDRGIDVVRNQIKHFA------QKKLHLPPGKHKIVILDEADSMTA 115

Query: 152 AAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ 211
            AQ ALRRTME  + STRF   CN  + II+PL S+C+  R+  L++  +L RL  I + 
Sbjct: 116 GAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKL 175

Query: 212 ESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN-EDVLEVTG 261
           E V      LE ++ T+ GDMR+AI  LQS      G G+VN ++V ++  
Sbjct: 176 EDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVA---GHGLVNADNVFKIVD 223

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 224

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]

 Score = 41.5 bits (96), Expect = 7e-05
 Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 4/44 (9%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVN-EDVLEVTG 362
             LE ++ T+ GDMR+AI  LQS      G G+VN ++V ++  
Sbjct: 183 DGLEAIIFTAEGDMRQAINNLQSTVA---GHGLVNADNVFKIVD 223

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 227

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]

 Score =  154 bits (390), Expect = 4e-45
 Identities = 101/232 (43%), Positives = 147/232 (63%), Gaps = 10/232 (4%)

Query: 33  VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG 92
           +PWVEKYRP+T+D+V  Q EV++ ++K +    LPH LFYGPPGTGKTST++A   +++G
Sbjct: 2   LPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYG 61

Query: 93  DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA 152
             Y   +LELNASDDRGI V+R+++K F        +        FK++ILDEAD+MT+A
Sbjct: 62  KNYSNMVLELNASDDRGIDVVRNQIKDF-------ASTRQIFSKGFKLIILDEADAMTNA 114

Query: 153 AQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQE 212
           AQ ALRR +E+ TK+TRFC++ NY   +   L S+C++FRF+PL +  +  R+  +   E
Sbjct: 115 AQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHE 174

Query: 213 SVMCDFKALETLVETSGGDMRRAITCLQSCARL---KGGEGIVNEDVLEVTG 261
            +     A + L+E S GDMRR +  LQSC         + I ++ + E  G
Sbjct: 175 KLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCG 226

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 227

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]

 Score = 43.5 bits (101), Expect = 2e-05
 Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARL---KGGEGIVNEDVLEVTG 362
            A + L+E S GDMRR +  LQSC         + I ++ + E  G
Sbjct: 181 NAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCG 226

>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 =  121 bits (304), Expect = 2e-32
 Identities = 67/250 (26%), Positives = 114/250 (45%), Gaps = 31/250 (12%)

Query: 35  WVEKYRPKTIDDVIEQQEVVSVLKKCL-SGADLPHFLFYGPPGTGKTSTMIAACHQLFGD 93
           WV+KYRPK+++ +   +E+ + LK       DLPH L YGP GTGK +  +A    +FG 
Sbjct: 1   WVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGP 60

Query: 94  MYRER---------------------------ILELNASDDRGIQVIRDKVKTFAQQTAS 126
                                           I   +  ++  I +     +    +   
Sbjct: 61  GVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVD 120

Query: 127 GFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTS 186
             +        +K VI++EA+S+T  AQAALRRTMEK +K+ R  ++C+ +S II P+ S
Sbjct: 121 FQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKS 180

Query: 187 RCSKFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGGDMRRAITCLQSCARL 245
           +C   R    +++ + T L  +   E +  + K  L+ + + S G++R ++  L+S A  
Sbjct: 181 QCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMA-- 238

Query: 246 KGGEGIVNED 255
              E  +   
Sbjct: 239 LNNELALKSS 248

>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 = 9e-04
 Identities = 8/36 (22%), Positives = 17/36 (47%), Gaps = 2/36 (5%)

Query: 321 ALETLVETSGGDMRRAITCLQSCARLKGGEGIVNED 356
            L+ + + S G++R ++  L+S A     E  +   
Sbjct: 215 ILKRIAQASNGNLRVSLLMLESMA--LNNELALKSS 248

>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 =  121 bits (303), Expect = 3e-32
 Identities = 53/255 (20%), Positives = 103/255 (40%), Gaps = 31/255 (12%)

Query: 35  WVEKYRPKTIDDVIEQQEVVSVLKKCLSGAD-----------------LPHFLFYGPPGT 77
           W  KY P  +  V   +  V  LK  L+  +                     + YGPPG 
Sbjct: 4   WTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGI 63

Query: 78  GKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTAS-GFNQDGKPCP 136
           GKT+       +L  D+  +     NASD R   ++   VK      +  G+ +  +   
Sbjct: 64  GKTTAAHLVAQELGYDILEQ-----NASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQ 118

Query: 137 P----FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVS--CIIQPLTSRCSK 190
                  ++I+DE D M+   +  + +  +   K++   ++         ++P    C  
Sbjct: 119 NLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDRVCLD 178

Query: 191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEG 250
            +F+    N++ +RL  I  +E    D   ++ L++T+ GD+R+ I  L + +     + 
Sbjct: 179 IQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTIST--TTKT 236

Query: 251 IVNEDVLEVTGVIPK 265
           I +E++ E++    K
Sbjct: 237 INHENINEISKAWEK 251

>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 = 44.8 bits (104), Expect = 1e-05
 Identities = 10/46 (21%), Positives = 25/46 (54%), Gaps = 2/46 (4%)

Query: 320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIP 365
             ++ L++T+ GD+R+ I  L + +     + I +E++ E++    
Sbjct: 207 NVIDRLIQTTRGDIRQVINLLSTIST--TTKTINHENINEISKAWE 250

>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 =  108 bits (269), Expect = 1e-27
 Identities = 51/251 (20%), Positives = 78/251 (31%), Gaps = 46/251 (18%)

Query: 40  RPKTIDDVIEQQEVVSVLKKCLS-----GADLPHFLFYGPPGTGKTSTMIAACHQLFGDM 94
           RPKT+D+ I Q+ +   L+  L         L H L +GPPG GKT+      H+L    
Sbjct: 4   RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG--- 60

Query: 95  YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQ 154
                + L  +    I+   D     A     G            I+ +DE   ++  A+
Sbjct: 61  -----VNLRVTSGPAIEKPGDLAAILANSLEEG-----------DILFIDEIHRLSRQAE 104

Query: 155 AALRRTMEK----------------ETKSTRFCLICNYVSCIIQPLTSR---CSKFRFKP 195
             L   ME                   +  RF LI       +               + 
Sbjct: 105 EHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEY 164

Query: 196 LAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSC---ARLKGGEGIV 252
                +   +        V    +A   +   S G MR A    +     A++ G E I 
Sbjct: 165 YTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVIT 224

Query: 253 NEDVLEVTGVI 263
            E  LE    +
Sbjct: 225 RERALEALAAL 235

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]} Length = 198

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]

 Score =  102 bits (256), Expect = 3e-26
 Identities = 31/202 (15%), Positives = 69/202 (34%), Gaps = 19/202 (9%)

Query: 54  VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRER-ILELNA-SDDRGIQ 111
           +  LK+ +  ++    L  G   +      +     +     +   +LE++   ++ GI 
Sbjct: 3   LETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGID 62

Query: 112 VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFC 171
            IR  +K F   +   +          K VI+ + + MT  A  A  + +E+  +     
Sbjct: 63  DIRT-IKDFLNYSPELYT--------RKYVIVHDCERMTQQAANAFLKALEEPPEYAVIV 113

Query: 172 LICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYI-------CEQESVMCDFKALETL 224
           L       ++  + SR  +       E   L + +           +       +A +  
Sbjct: 114 LNTRRWHYLLPTIKSRVFRVVVNVPKEFRDLVKEKIGDLWEELPLLERDFKTALEAYKLG 173

Query: 225 VETSGGDMRRAITCLQSCARLK 246
            E   G +  ++  L++   LK
Sbjct: 174 AEKLSG-LMESLKVLETEKLLK 194

>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 =  103 bits (257), Expect = 5e-26
 Identities = 39/237 (16%), Positives = 77/237 (32%), Gaps = 13/237 (5%)

Query: 37  EKYRPKTIDDVIEQQEVVSVLKKCL-----SGADLPHFLFYGPPGTGKTSTMIAACHQLF 91
           +  RPK++D+ I Q+ V   L   L      G  L H L  GPPG GKT+       +L 
Sbjct: 1   QFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ 60

Query: 92  GDMY-RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT 150
            +++     + +   D   I    ++            N+  +    +  +   + D M 
Sbjct: 61  TNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEIHRLNKAVEE-LLYSAIEDFQIDIMI 119

Query: 151 HAAQAALRRTMEKETKSTRFCLICNYV-SCIIQPLTSRCSKFRFKPLAENTMLTRLQYIC 209
               +A  +++  + +                   +               +   ++   
Sbjct: 120 GKGPSA--KSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAA 177

Query: 210 EQESVMCDFKALETLVETSGGDMRRAITCLQSCARL---KGGEGIVNEDVLEVTGVI 263
               V  +  A E + + S G  R AI   +    +      + I  + VL+   V+
Sbjct: 178 SLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRINTDIVLKTMEVL 234

>d1sxjd1 a.80.1.1 (D:263-353) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 91

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 75.2 bits (185), Expect = 2e-17
 Identities = 19/90 (21%), Positives = 46/90 (51%), Gaps = 3/90 (3%)

Query: 364 IPNPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALI 420
           +P+  + ++++      F  ++KY+   +   +SA  + +Q H+  ++  +     K  I
Sbjct: 1   VPHDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQI 60

Query: 421 LEKLAECNARLQDGASEYIQILDLGSIVIK 450
              L   ++RL +G +E+IQ+L+L   + +
Sbjct: 61  SWLLFTTDSRLNNGTNEHIQLLNLLVKISQ 90

>d1sxjd1 a.80.1.1 (D:263-353) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 91

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 45.5 bits (108), Expect = 4e-07
 Identities = 9/60 (15%), Positives = 25/60 (41%), Gaps = 3/60 (5%)

Query: 263 IPKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQKALF 319
           +P   + ++++      F  ++KY+   +   +SA  + +Q H+  +   +     K   
Sbjct: 1   VPHDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQI 60

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 207

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]

 Score = 76.7 bits (187), Expect = 9e-17
 Identities = 36/205 (17%), Positives = 56/205 (27%), Gaps = 19/205 (9%)

Query: 50  QQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTST--MIAACHQLFGDMYRERILELNASD 106
            +     L          H  L    PG G  +    ++           +         
Sbjct: 7   LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQ 66

Query: 107 DRGIQVIRDKVKTFAQQTASGFNQDGKP-----------CPPFKIVILDEADSMTHAAQA 155
                   D      ++  +    D                  K+V + +A  +T AA  
Sbjct: 67  LMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAAN 126

Query: 156 ALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVM 215
           AL +T+E+    T F L       ++  L SRC      P  E   +T L        V 
Sbjct: 127 ALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLS-----REVT 181

Query: 216 CDFKALETLVETSGGDMRRAITCLQ 240
               AL   +  S G    A+   Q
Sbjct: 182 MSQDALLAALRLSAGSPGAALALFQ 206

>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 = 76.3 bits (187), Expect = 7e-16
 Identities = 27/194 (13%), Positives = 54/194 (27%), Gaps = 23/194 (11%)

Query: 67  PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT----FAQ 122
            ++LF GP  +GKT+   A      G       L +N   DR    +   +      F  
Sbjct: 155 RYWLFKGPIDSGKTTLAAALLELCGGK-----ALNVNLPLDRLNFELGVAIDQFLVVFED 209

Query: 123 QTASGFNQDGKPCPPFKIVILDEADSMT------HAAQAALRRTMEKETKSTRFCLICN- 175
              +G      P        ++  D++              +   ++        +  N 
Sbjct: 210 VKGTGGESRDLPS----GQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNE 265

Query: 176 YVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLV-ETSGGDMRR 234
           Y                         L R +++ E+  +      L  L+      +  +
Sbjct: 266 YSVPKTLQARFVKQIDFRPKDYLKHCLERSEFLLEKRIIQSGIALLLMLIWYRPVAEFAQ 325

Query: 235 AIT--CLQSCARLK 246
           +I    ++   RL 
Sbjct: 326 SIQSRIVEWKERLD 339

>d1sxjc1 a.80.1.1 (C:239-333) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 95

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 66.3 bits (162), Expect = 2e-14
 Identities = 12/87 (13%), Positives = 33/87 (37%), Gaps = 4/87 (4%)

Query: 369 IEKLLKV---DSFQVLEKYIEDLILE-AYSATQLFDQFHDIVMSASSLSDKQKALILEKL 424
           ++ +LK    D +      +  +      +   L +    I+      +++ +  +L KL
Sbjct: 6   LKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKL 65

Query: 425 AECNARLQDGASEYIQILDLGSIVIKA 451
           A+    +  G ++ IQ   +   +  +
Sbjct: 66  ADIEYSISKGGNDQIQGSAVIGAIKAS 92

>d1sxjb1 a.80.1.1 (B:231-322) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 92

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 62.9 bits (153), Expect = 3e-13
 Identities = 12/86 (13%), Positives = 41/86 (47%), Gaps = 1/86 (1%)

Query: 369 IEKLLKVDSFQ-VLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAEC 427
           ++K+L   + +  ++    DL  + YS+  +      +  + + + +  +  +++++   
Sbjct: 6   VKKMLLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLT 65

Query: 428 NARLQDGASEYIQILDLGSIVIKANK 453
           + R+ +G   Y+Q+  + + + K N 
Sbjct: 66  HMRILEGVGTYLQLASMLAKIHKLNN 91

>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 = 67.1 bits (162), Expect = 4e-13
 Identities = 40/261 (15%), Positives = 76/261 (29%), Gaps = 36/261 (13%)

Query: 34  PWVEKYRPKTIDDVIEQ-QEVVSVLKKCL--SGADLPHFLFYGPPGTGKTSTMIAACHQL 90
            +   Y PK +    +Q Q++  +L   L   G   P     G PGTGKT T+       
Sbjct: 8   VFSPSYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY 67

Query: 91  FGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASG----------FNQDGKPCPPFKI 140
                   +            +I +  ++                    +  +    +  
Sbjct: 68  KDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMF 127

Query: 141 VILDEADSMTHAAQAALRRTMEKETKSTRFCLIC-------NYVSCIIQPLTSRCSK--- 190
           ++LD+A ++     +   R  ++  K   F +           ++ +         K   
Sbjct: 128 LVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVI 187

Query: 191 -FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSG---------GDMRRAITCLQ 240
            F      +   +   +              L+ + + +G         GD R AI  L 
Sbjct: 188 RFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILY 247

Query: 241 SCARL---KGGEGIVNEDVLE 258
             A      G + I  EDV +
Sbjct: 248 RSAYAAQQNGRKHIAPEDVRK 268

>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 = 61.7 bits (148), Expect = 3e-11
 Identities = 35/273 (12%), Positives = 71/273 (26%), Gaps = 50/273 (18%)

Query: 37  EKYRPKTIDDVIEQ-QEVVSVLKKCLSGADLP-----HFLFYGPPGTGKTSTMIAACHQL 90
           E Y P  +     + + +  +    L            +   G  G GKT+       ++
Sbjct: 11  ENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRV 70

Query: 91  FGDMYRERILELNASDD-RGIQVIRDKVKTFAQQTASGFNQDGKP--------------- 134
                +E +    A  +      +   +    +QT       G P               
Sbjct: 71  SEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVE 130

Query: 135 -----CPPFKIVILDEADSMTHAAQAALRRTMEKETK------------STRFCLICNYV 177
                    +   +  +  +       L R  E+               ++    +    
Sbjct: 131 NHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMR 190

Query: 178 SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDF--KALETLVETSG------ 229
             I Q  +    K          + T L+   E       +  + LE + +  G      
Sbjct: 191 EKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGD 250

Query: 230 GDMRRAITCLQSCARL---KGGEGIVNEDVLEV 259
           G  RRAI  L+    +    G + +  + V + 
Sbjct: 251 GSARRAIVALKMACEMAEAMGRDSLSEDLVRKA 283

>d1iqpa1 a.80.1.1 (A:233-327) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 95

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score = 57.1 bits (138), Expect = 5e-11
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 1/76 (1%)

Query: 369 IEKLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECN 428
           +   LK +  +  EK  E L+ +  S   +  Q H  V +   + + +K L+ +K+ E N
Sbjct: 11  MLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFN-LPIEEPKKVLLADKIGEYN 69

Query: 429 ARLQDGASEYIQILDL 444
            RL +GA+E IQ+  L
Sbjct: 70  FRLVEGANEIIQLEAL 85

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]} Length = 333

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]

 Score = 43.4 bits (101), Expect = 3e-05
 Identities = 14/96 (14%), Positives = 34/96 (35%), Gaps = 1/96 (1%)

Query: 46  DVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS 105
            ++ Q+++   L        +   L +G  GTGK+ T + A   L  ++       +++ 
Sbjct: 8   AIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKS-TAVRALAALLPEIEAVEGCPVSSP 66

Query: 106 DDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIV 141
           +   I      + T   +  +            ++V
Sbjct: 67  NVEMIPDWATVLSTNVIRKPTPVVDLPLGVSEDRVV 102

>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 = 41.0 bits (95), Expect = 2e-04
 Identities = 14/98 (14%), Positives = 23/98 (23%), Gaps = 5/98 (5%)

Query: 69  FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGF 128
            L  GP G GKT               +    +       G +V                
Sbjct: 52  ILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSA----- 106

Query: 129 NQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK 166
                      IV +DE D +    + +      +  +
Sbjct: 107 GGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQ 144

>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 = 38.4 bits (88), Expect = 0.001
 Identities = 11/53 (20%), Positives = 20/53 (37%)

Query: 44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYR 96
          +  V++  E++    K      L   L  GPP +GKT+       +      +
Sbjct: 18 VTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIK 70

>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 = 37.3 bits (85), Expect = 0.002
 Identities = 35/274 (12%), Positives = 77/274 (28%), Gaps = 35/274 (12%)

Query: 42  KTIDDVIEQQEVVSVLKKCLSGADLPH----FLFYGPPGTGKTSTMIAACHQLFGDMYRE 97
               D   +  +   L++ + G         FL  G PG+GKTS   A   +  G++   
Sbjct: 4   VNFTDKQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVI 63

Query: 98  RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAAL 157
                        ++++   K   +                 I+            +   
Sbjct: 64  DNDTFKQQHPNFDELVKLYEKDVVKHV-----TPYSNRMTEAIISRLSDQGYNLVIEGTG 118

Query: 158 RRTMEKETKSTRFCLICNYVSCIIQPLTSR----CSKFRFKPLAENTML----TRLQYIC 209
           R T      +T            +  +        +  R++ +  +  +    T  Q   
Sbjct: 119 RTTDVPIQTATMLQAKGYETKMYVMAVPKINSYLGTIERYETMYADDPMTARATPKQAHD 178

Query: 210 E-QESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLE------VTG- 261
              +++  + + L         D+R                 I  ++ LE      V+G 
Sbjct: 179 IVVKNLPTNLETLHK--TGLFSDIRLYNREGVKLYSSLETPSISPKETLEKELNRKVSGK 236

Query: 262 --------VIPKPWIEKLLKVDSFQVLEKYIEDL 287
                   +  K  + K  +   F+ +++ +E L
Sbjct: 237 EIQPTLERIEQKMVLNKHQETPEFKAIQQKLESL 270

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	456
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	100.0
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	100.0
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	100.0
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	100.0
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	100.0
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.96
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.96
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.94
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.94
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.92
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.82
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.81
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.81
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.76
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.72
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.72
d1sxjb1	92	Replication factor C4 {Baker's yeast (Saccharomyce	99.71
d1sxjc1	95	Replication factor C3 {Baker's yeast (Saccharomyce	99.67
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.65
d1iqpa1	95	Replication factor C {Archaeon Pyrococcus furiosus	99.65
d1sxjd1	91	Replication factor C2 {Baker's yeast (Saccharomyce	99.64
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.61
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	99.59
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.58
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.45
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.43
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.37
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.37
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.34
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.34
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.28
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.27
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.14
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.04
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	98.8
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	98.66
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.55
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.15
d1jqlb_	140	delta subunit of DNA polymerase III, N-domain {Esc	98.01
d1tuea_	205	Replication protein E1 helicase domain {Human papi	98.01
d1jr3d1	127	delta subunit {Escherichia coli [TaxId: 562]}	97.94
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.93
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.75
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.64
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.59
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	97.56
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	97.47
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.44
d1okkd2	207	GTPase domain of the signal recognition particle r	97.44
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.43
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.36
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.28
d1sxje1	99	Replication factor C5 {Baker's yeast (Saccharomyce	97.26
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.23
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.19
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.19
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.14
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.08
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.06
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.05
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.02
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.0
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.84
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.83
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.79
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.78
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.76
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.71
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.67
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	96.58
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.56
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.54
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.51
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.51
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.5
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.47
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.41
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.34
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.33
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.31
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.3
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.25
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.23
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.19
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.18
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.14
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.14
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.13
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.1
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.08
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.96
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.94
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.92
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.89
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.87
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.87
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	95.82
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.8
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	95.73
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.73
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	95.71
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.69
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.67
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.66
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	95.6
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.58
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.58
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.54
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.53
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.53
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.52
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.48
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.48
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.45
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	95.44
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.29
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.29
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.28
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.28
d1sxjd1	91	Replication factor C2 {Baker's yeast (Saccharomyce	95.26
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.26
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.13
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.05
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.04
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.01
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.0
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.99
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.97
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.95
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.95
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.93
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	94.92
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	94.91
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.87
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.85
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.73
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	94.72
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.7
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	94.68
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	94.66
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	94.65
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	94.65
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.63
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	94.57
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.53
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.51
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.49
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.44
d1sxjc1	95	Replication factor C3 {Baker's yeast (Saccharomyce	94.44
d1iqpa1	95	Replication factor C {Archaeon Pyrococcus furiosus	94.42
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.38
d1sxjb1	92	Replication factor C4 {Baker's yeast (Saccharomyce	94.36
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	94.22
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	94.13
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.09
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.09
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.01
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	93.98
d1jr3a1	126	gamma subunit {Escherichia coli [TaxId: 562]}	93.95
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.91
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	93.9
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	93.88
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	93.73
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	93.72
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	93.71
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	93.69
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.64
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	93.59
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	93.54
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	93.51
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.5
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	93.42
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	93.42
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	93.38
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.33
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	93.31
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	93.24
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	93.1
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.1
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	93.01
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	93.0
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	92.91
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.66
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	92.51
d1nrjb_	209	Signal recognition particle receptor beta-subunit	92.5
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	92.49
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	92.46
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	92.44
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	92.07
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	92.04
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	91.84
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	91.61
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	91.53
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	91.45
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	91.42
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	91.29
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	91.07
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	91.05
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	91.0
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	90.83
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	90.79
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	90.75
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	90.75
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	90.68
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	90.62
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	90.6
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	90.59
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	90.56
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	90.55
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	90.32
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	90.16
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	90.09
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	90.01
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	90.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	89.98
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	89.9
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	89.88
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	89.87
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	89.69
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	89.69
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	89.48
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	89.42
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	89.42
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	89.39
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	89.32
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	89.2
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	89.19
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	89.16
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	88.97
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	88.9
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	88.9
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	88.89
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	88.65
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	88.62
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	88.62
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	88.52
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	88.47
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	88.3
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	88.26
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	88.17
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	88.09
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	87.8
d1tafb_	70	TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta	87.74
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	87.63
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	87.57
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.43
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	87.42
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	87.39
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	87.24
d2huec1	82	Histone H4 {African clawed frog (Xenopus laevis) [	87.23
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	87.06
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	86.99
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	86.91
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	86.77
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	86.65
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	86.62
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	86.19
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	86.17
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	86.03
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	85.98
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	85.76
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	85.74
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	85.48
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	85.17
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	85.13
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	84.63
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	84.61
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	84.33
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	84.29
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	84.12
d1htaa_	68	Archaeal histone {Archaeon Methanothermus fervidus	83.92
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	83.71
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	83.61
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	83.58
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	83.15
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	82.83
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	82.53
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	81.93
d1ry6a_	330	Kinesin {Malaria parasite (Plasmodium falciparum)	81.91
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	81.33
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	80.99
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	80.29

>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=100.00  E-value=7.5e-37  Score=281.76  Aligned_cols=223  Identities=46%  Similarity=0.815  Sum_probs=199.9

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChH
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ  111 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~  111 (456)
                      +.||+|||+|++|+|++|++++++.|+.|++.+..++++||||||+|||++++++++++.+..+...+.+.+.++..+.+
T Consensus         1 ~~pw~ekyrP~~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~   80 (227)
T d1sxjc2           1 NLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGID   80 (227)
T ss_dssp             CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHH
T ss_pred             CCchhhhhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCee
Confidence            47999999999999999999999999999999999999999999999999999999999877666678899999888877


Q ss_pred             HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEE
Q psy12150        112 VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKF  191 (456)
Q Consensus       112 ~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i  191 (456)
                      ................       ..+++++||||++.+....+..|++.+++++..++++++++...++.+++++||..+
T Consensus        81 ~~~~~~~~~~~~~~~~-------~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i  153 (227)
T d1sxjc2          81 VVRNQIKDFASTRQIF-------SKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRF  153 (227)
T ss_dssp             HHHTHHHHHHHBCCSS-------SCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             eeecchhhcccccccc-------CCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhh
Confidence            6665555444332211       125679999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        192 RFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       192 ~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      .|.+++.+++..++.+++.++++.+++++++.|++.++||+|.+++.||.+..+.   +.+.||.++|.++++
T Consensus       154 ~~~~~~~~~i~~~l~~I~~~e~i~i~~~~l~~i~~~s~Gd~R~ain~Lq~~~~~~~~~~~~~It~~~v~e~~g  226 (227)
T d1sxjc2         154 RFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCG  226 (227)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTTCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHTT
T ss_pred             ccccccccccccccccccccccccCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCCCCCeeCHHHHHHHhC
Confidence            9999999999999999999999999999999999999999999999999987655   357899999999886

>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=100.00  E-value=1.2e-36  Score=279.80  Aligned_cols=222  Identities=42%  Similarity=0.685  Sum_probs=201.5

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChH
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQ  111 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~  111 (456)
                      +.||+|||||++|+|++|++++++.|+.|++++..+|++||||||+|||++|+.+++++.+......+.++|+++.++..
T Consensus         2 ~~pw~eKyrP~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~   81 (224)
T d1sxjb2           2 QLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGID   81 (224)
T ss_dssp             CCCHHHHTCCSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHH
T ss_pred             CCchHhHhCCCCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCce
Confidence            57999999999999999999999999999999999999999999999999999999999877666789999999999988


Q ss_pred             HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEE
Q psy12150        112 VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKF  191 (456)
Q Consensus       112 ~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i  191 (456)
                      .+...+..+........      ...++++|+||+|.+....+..|+..++.++..++++++++...++.+++++||..+
T Consensus        82 ~i~~~~~~~~~~~~~~~------~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i  155 (224)
T d1sxjb2          82 VVRNQIKHFAQKKLHLP------PGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAIL  155 (224)
T ss_dssp             HHHTHHHHHHHBCCCCC------TTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             ehhhHHHHHHHhhccCC------CcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHh
Confidence            88887777765432221      135679999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy12150        192 RFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (456)
Q Consensus       192 ~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~  261 (456)
                      +|++++.+++..++..+++++++.+++++++.++..++||+|.+++.||.++..  .+.|+.++|.+++.
T Consensus       156 ~~~~~~~~~i~~~l~~i~~~e~~~i~~~~l~~I~~~s~Gd~R~ai~~Lq~~~~~--~~~i~~~~i~~~~d  223 (224)
T d1sxjb2         156 RYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAG--HGLVNADNVFKIVD  223 (224)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HSSBCHHHHHHHHT
T ss_pred             hhcccchhhhHHHHHHHHHhcccCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHc--CCCcCHHHHHHHhC
Confidence            999999999999999999999999999999999999999999999999987654  35899998887764

>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=100.00  E-value=8.8e-35  Score=269.91  Aligned_cols=217  Identities=25%  Similarity=0.394  Sum_probs=191.3

Q ss_pred             chhccCCCCcccccccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc------------------
Q psy12150         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY------------------   95 (456)
Q Consensus        35 w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~------------------   95 (456)
                      +.+||||++|++++|++++++.|..+++.++.+| +|||||||+|||++|+++++.+.....                  
T Consensus         2 ~~~KyrP~~~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~   81 (239)
T d1njfa_           2 LARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQG   81 (239)
T ss_dssp             HHHHTCCSSGGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHT
T ss_pred             chhhhCCCCHHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcC
Confidence            5789999999999999999999999999999888 999999999999999999999865321                  


Q ss_pred             -ccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEe
Q psy12150         96 -RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLIC  174 (456)
Q Consensus        96 -~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~  174 (456)
                       ..++++++.++..+.+.+++.+..+...+..         ++++++||||+|.|+.+.++.|+++||+++.+++||++|
T Consensus        82 ~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~---------~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~t  152 (239)
T d1njfa_          82 RFVDLIEIDAASRTKVEDTRDLLDNVQYAPAR---------GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLAT  152 (239)
T ss_dssp             CCTTEEEEETTCSSSHHHHHHHHHSCCCSCSS---------SSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEE
T ss_pred             CCCeEEEecchhcCCHHHHHHHHHHHHhcccc---------CCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEc
Confidence             1246888988877777776654443211111         367899999999999999999999999999999999999


Q ss_pred             cCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHH
Q psy12150        175 NYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNE  254 (456)
Q Consensus       175 ~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~  254 (456)
                      ++..++.+++++||..+.|.+++.+++..++..++..++..+++++++.|+..++||+|.+++.|+.+... +.+.|+.+
T Consensus       153 n~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~~~~~~l~~i~~~s~Gd~R~ain~l~~~~~~-~~~~I~~~  231 (239)
T d1njfa_         153 TDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIAS-GDGQVSTQ  231 (239)
T ss_dssp             SCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHTTTCHHHHHHHHHHHHHH-TTTSBCHH
T ss_pred             CCccccChhHhhhhcccccccCcHHHhhhHHHHHHhhhccCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-CCCCcCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999987664 45689999


Q ss_pred             HHHHHhC
Q psy12150        255 DVLEVTG  261 (456)
Q Consensus       255 ~v~~~~~  261 (456)
                      +|.++++
T Consensus       232 ~v~~~lg  238 (239)
T d1njfa_         232 AVSAMLG  238 (239)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhC
Confidence            9999886

>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=100.00  E-value=6.3e-35  Score=269.53  Aligned_cols=221  Identities=48%  Similarity=0.831  Sum_probs=197.3

Q ss_pred             CCCcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI  110 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~  110 (456)
                      -..||++||+|++|+|++|++.+++.|+.|+++++.++++||||||+|||++|+++++++.++.....++++|+++..+.
T Consensus        10 ~~~~w~~ky~P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~   89 (231)
T d1iqpa2          10 LEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGI   89 (231)
T ss_dssp             TTSCHHHHTCCCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHH
T ss_pred             hhchHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccch
Confidence            45899999999999999999999999999999999999999999999999999999999987777778999999987766


Q ss_pred             HHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceE
Q psy12150        111 QVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSK  190 (456)
Q Consensus       111 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~  190 (456)
                      ..++..............       ..++++++||++.+....+..|+.+++.+..++++|++++...++.+++.+||..
T Consensus        90 ~~~~~~~~~~~~~~~~~~-------~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~  162 (231)
T d1iqpa2          90 NVIREKVKEFARTKPIGG-------ASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAI  162 (231)
T ss_dssp             HTTHHHHHHHHHSCCGGG-------CSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEE
T ss_pred             hHHHHHHHHHHhhhhccC-------CCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCcccc
Confidence            666665555443332221       2556999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHh
Q psy12150        191 FRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT  260 (456)
Q Consensus       191 i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~  260 (456)
                      +.|.+++..++..+++.+++++++.+++++++.|++.++||+|.+++.||.++..  .+.||.++|..+.
T Consensus       163 i~~~~~~~~~~~~~l~~~~~~e~i~i~~~~l~~I~~~~~gdiR~ai~~Lq~~~~~--~~~it~e~v~~v~  230 (231)
T d1iqpa2         163 FRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAAL--DKKITDENVFMVA  230 (231)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CSEECHHHHHHHT
T ss_pred             ccccccchhhHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCcCHHHHHhhh
Confidence            9999999999999999999999999999999999999999999999999987654  5679999998765

>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=100.00  E-value=6.3e-34  Score=263.53  Aligned_cols=228  Identities=57%  Similarity=0.973  Sum_probs=196.3

Q ss_pred             cchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCC-ccccceEEeeCCCCcChHH
Q psy12150         34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD-MYRERILELNASDDRGIQV  112 (456)
Q Consensus        34 ~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~-~~~~~~~e~n~~~~~~~~~  112 (456)
                      ||++||+|++|++++|+++.++.|+.++++++.++++|+||||+|||++++++++++.+. .......+++.+...+...
T Consensus         1 ~w~~ky~P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~   80 (237)
T d1sxjd2           1 PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISI   80 (237)
T ss_dssp             CHHHHTCCSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHH
T ss_pred             CcchhhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchH
Confidence            899999999999999999999999999999999999999999999999999999987542 2234677888888888777


Q ss_pred             HHHHHHHHHHhhccCCCCC---CCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCce
Q psy12150        113 IRDKVKTFAQQTASGFNQD---GKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCS  189 (456)
Q Consensus       113 i~~~l~~~~~~~~~~~~~~---~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~  189 (456)
                      +...+..+...........   ......++++||||++.+....++.+...++.++.++.+|++++...++.+++++||.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~  160 (237)
T d1sxjd2          81 VREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCS  160 (237)
T ss_dssp             HTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSE
T ss_pred             HHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhh
Confidence            7666666544332211100   0112367799999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh----CCCCCCHHHHHHHhC
Q psy12150        190 KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK----GGEGIVNEDVLEVTG  261 (456)
Q Consensus       190 ~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~----~~~~It~~~v~~~~~  261 (456)
                      .++|.+++.+++..+|..++.++++.+++++++.|++.++||+|.+++.||.++..+    .++.||.++|+++++
T Consensus       161 ~i~f~~~~~~~~~~~L~~i~~~e~i~i~~~~l~~ia~~s~gd~R~ai~~L~~~~~~~~~~~~~~~It~~~i~e~~g  236 (237)
T d1sxjd2         161 KFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAG  236 (237)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSCHHHHHHHHHHTHHHHHHHCSCCCCCHHHHHHHHT
T ss_pred             hhccccccccccchhhhhhhhhhcCcCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhcCCCCccCHHHHHHhhC
Confidence            999999999999999999999999999999999999999999999999999886654    357899999999876

>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=99.96  E-value=2e-29  Score=235.15  Aligned_cols=211  Identities=33%  Similarity=0.524  Sum_probs=161.6

Q ss_pred             chhccCCCCcccccccHHHHHHHHHHHhcCCC-CeEEEECCCCCcHHHHHHHHHHHhcCCcccc----------------
Q psy12150         35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADL-PHFLFYGPPGTGKTSTMIAACHQLFGDMYRE----------------   97 (456)
Q Consensus        35 w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~-~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~----------------   97 (456)
                      |+|||+|++|++++|++++.+.|+.++..+.. ++++||||||+|||++++++++.+.......                
T Consensus         1 W~eky~P~~~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~   80 (252)
T d1sxje2           1 WVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKL   80 (252)
T ss_dssp             CTTTTCCCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC----------------
T ss_pred             CCcccCCCCHHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchh
Confidence            99999999999999999999999999987654 4599999999999999999999875322110                


Q ss_pred             --------ceEEeeCCCCc--ChHHHHHHHHHHHHhhccC-CCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccC
Q psy12150         98 --------RILELNASDDR--GIQVIRDKVKTFAQQTASG-FNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK  166 (456)
Q Consensus        98 --------~~~e~n~~~~~--~~~~i~~~l~~~~~~~~~~-~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~  166 (456)
                              ....++..+..  ................... ........+.+++++|||+|.++.+.++.|++.++.++.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~  160 (252)
T d1sxje2          81 ELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSK  160 (252)
T ss_dssp             --CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTT
T ss_pred             hhhhccCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchhhhcccccccc
Confidence                    11122222211  1111222222221111100 001111124677999999999999999999999999999


Q ss_pred             cceEEEEecCcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q psy12150        167 STRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCD-FKALETLVETSGGDMRRAITCLQSCARL  245 (456)
Q Consensus       167 ~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~-~~~l~~L~~~s~gdlr~~~~~L~~~~~~  245 (456)
                      +++||++|+...++.+++++||..++|++++.+++.+++..++.++++.++ +++++.|+..++||+|++++.||.++..
T Consensus       161 ~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~~~~l~~i~~~s~Gd~R~ai~~Lq~~~~~  240 (252)
T d1sxje2         161 NIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMALN  240 (252)
T ss_dssp             TEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHHHHHHHTHHHHT
T ss_pred             cccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999999999999998875 7888999999999999999999988764

>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=99.96  E-value=9.5e-29  Score=230.74  Aligned_cols=222  Identities=26%  Similarity=0.393  Sum_probs=168.0

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhc-----------------CCCCeEEEECCCCCcHHHHHHHHHHHhcCCc
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG-----------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDM   94 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~-----------------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~   94 (456)
                      +..|++||+|++|++++|+++.++.|..|+..                 +..++++||||||||||++|++++++++.  
T Consensus         1 ~~lW~eky~P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~--   78 (253)
T d1sxja2           1 DKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY--   78 (253)
T ss_dssp             CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC--
T ss_pred             CCccccCcCCCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHh--
Confidence            36899999999999999999999999999853                 23456999999999999999999999754  


Q ss_pred             cccceEEeeCCCCcChHHHHHHHHHHHHhhccCC-----CCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc-cCcc
Q psy12150         95 YRERILELNASDDRGIQVIRDKVKTFAQQTASGF-----NQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-TKST  168 (456)
Q Consensus        95 ~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~-----~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~-~~~~  168 (456)
                         ++.+++.++..+...+...+..+........     ...........++++||++.+....+..+...++.. ....
T Consensus        79 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~~  155 (253)
T d1sxja2          79 ---DILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTST  155 (253)
T ss_dssp             ---EEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSS
T ss_pred             ---hhhccccccchhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhccccc
Confidence               6788888887776665554433322211000     000111135679999999999876655444444321 1223


Q ss_pred             eEEEEec-CcccccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhC
Q psy12150        169 RFCLICN-YVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKG  247 (456)
Q Consensus       169 ~lIl~~~-~~~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~  247 (456)
                      .++++++ ......+++++|+..++|.+|+.+++..+++.++.++|+.+++++++.|++.++||+|.+++.|+.+...  
T Consensus       156 ~ii~i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~~~l~~i~~~s~GDiR~ai~~L~~~~~~--  233 (253)
T d1sxja2         156 PLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTISTT--  233 (253)
T ss_dssp             CEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTTCHHHHHHHHTHHHHH--
T ss_pred             ccccccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCHHHHHHHHHhCCCcHHHHHHHHHHHHHc--
Confidence            3444554 4455677899999999999999999999999999999999999999999999999999999999987764  


Q ss_pred             CCCCCHHHHHHHh
Q psy12150        248 GEGIVNEDVLEVT  260 (456)
Q Consensus       248 ~~~It~~~v~~~~  260 (456)
                      .+.++.+++.++.
T Consensus       234 ~~~i~~~~~~~~~  246 (253)
T d1sxja2         234 TKTINHENINEIS  246 (253)
T ss_dssp             SSCCCTTHHHHHH
T ss_pred             CCCCCHHHHHHHh
Confidence            4578887776654

>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=99.94  E-value=3.7e-26  Score=211.13  Aligned_cols=203  Identities=21%  Similarity=0.234  Sum_probs=170.1

Q ss_pred             ccCCCCcccccccHHHHHHHHHHHh-----cCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHH
Q psy12150         38 KYRPKTIDDVIEQQEVVSVLKKCLS-----GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQV  112 (456)
Q Consensus        38 ky~P~~~~~ivg~~~~~~~l~~~l~-----~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~  112 (456)
                      --||++|++++|++++++.|..|++     +..++++|||||||||||++|+++++++..     ++..+++.+......
T Consensus         2 ~~RP~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~-----~~~~~~~~~~~~~~~   76 (238)
T d1in4a2           2 FLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT-----NIHVTSGPVLVKQGD   76 (238)
T ss_dssp             TTSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTC-----CEEEEETTTCCSHHH
T ss_pred             CCCCCcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCC-----CcccccCcccccHHH
Confidence            3589999999999999999999875     334667999999999999999999999755     567788888777666


Q ss_pred             HHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc------------------cCcceEEEEe
Q psy12150        113 IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE------------------TKSTRFCLIC  174 (456)
Q Consensus       113 i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~------------------~~~~~lIl~~  174 (456)
                      +...+...               ..+.++++||++.+.+..++.++..++..                  ...+++|++|
T Consensus        77 ~~~~~~~~---------------~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at  141 (238)
T d1in4a2          77 MAAILTSL---------------ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGAT  141 (238)
T ss_dssp             HHHHHHHC---------------CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEE
T ss_pred             HHHHHHhh---------------ccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEec
Confidence            55443321               12349999999999999888888877653                  2356888999


Q ss_pred             cCcccccccccCCce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---CCCC
Q psy12150        175 NYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK---GGEG  250 (456)
Q Consensus       175 ~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~---~~~~  250 (456)
                      +.+....+++++|+. .+.|++++.+++..+++.++..++..+++++++.+++.++||+|.+++.|+.+...+   +.+.
T Consensus       142 ~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~s~gd~R~ai~~l~~~~~~~~~~~~~~  221 (238)
T d1in4a2         142 TRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADR  221 (238)
T ss_dssp             SCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHTCSS
T ss_pred             CCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccchhhHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhcCCc
Confidence            999999999999987 579999999999999999999999999999999999999999999999999875443   5678


Q ss_pred             CCHHHHHHHh
Q psy12150        251 IVNEDVLEVT  260 (456)
Q Consensus       251 It~~~v~~~~  260 (456)
                      ||.+.+.+++
T Consensus       222 it~~~~~~al  231 (238)
T d1in4a2         222 INTDIVLKTM  231 (238)
T ss_dssp             BCHHHHHHHH
T ss_pred             cCHHHHHHHH
Confidence            9998887765

>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=99.94  E-value=4.6e-25  Score=203.86  Aligned_cols=203  Identities=21%  Similarity=0.197  Sum_probs=165.3

Q ss_pred             CCCCcccccccHHHHHHHHHHHhc-----CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHH
Q psy12150         40 RPKTIDDVIEQQEVVSVLKKCLSG-----ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIR  114 (456)
Q Consensus        40 ~P~~~~~ivg~~~~~~~l~~~l~~-----~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~  114 (456)
                      ||++|++++|++++++.|+.++..     ..++++|||||||+|||++|+++++++..     ++...+++.........
T Consensus         4 RP~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~-----~~~~~~~~~~~~~~~~~   78 (239)
T d1ixsb2           4 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGV-----NLRVTSGPAIEKPGDLA   78 (239)
T ss_dssp             CCCSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTC-----CEEEEETTTCCSHHHHH
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCC-----CeEeccCCccccchhhH
Confidence            899999999999999999988853     34567999999999999999999999754     56778887766554443


Q ss_pred             HHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc------------------cCcceEEEEecC
Q psy12150        115 DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE------------------TKSTRFCLICNY  176 (456)
Q Consensus       115 ~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~------------------~~~~~lIl~~~~  176 (456)
                      ..+...     .         ....++++||+|.+....++.++..+++.                  .+..++++++++
T Consensus        79 ~~~~~~-----~---------~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  144 (239)
T d1ixsb2          79 AILANS-----L---------EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTR  144 (239)
T ss_dssp             HHHHTT-----C---------CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESC
T ss_pred             HHHHhh-----c---------cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccC
Confidence            333221     1         12349999999999999999999888752                  234567777776


Q ss_pred             ccc-ccccccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhh---CCCCCC
Q psy12150        177 VSC-IIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLK---GGEGIV  252 (456)
Q Consensus       177 ~~k-l~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~---~~~~It  252 (456)
                      ... ..+.+.++|..+.|.+++.+++..++...+..+++.++++.++.++..++||+|.+++.|+.+..++   +.+.||
T Consensus       145 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~~~~l~~ia~~s~gd~R~a~~~l~~~~~~a~~~~~~~It  224 (239)
T d1ixsb2         145 PGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVIT  224 (239)
T ss_dssp             CSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCCBCHHHHHHHHHHTTSSHHHHHHHHHHHHHHHTTSCCSCBC
T ss_pred             cccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCCccchHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhCCCCcC
Confidence            655 4466777788999999999999999999999999999999999999999999999999999887665   467799


Q ss_pred             HHHHHHHhC
Q psy12150        253 NEDVLEVTG  261 (456)
Q Consensus       253 ~~~v~~~~~  261 (456)
                      .+++.+++.
T Consensus       225 ~~~~~~~l~  233 (239)
T d1ixsb2         225 RERALEALA  233 (239)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            998887663

>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=99.92  E-value=1.9e-24  Score=194.97  Aligned_cols=178  Identities=22%  Similarity=0.267  Sum_probs=146.4

Q ss_pred             ccHHHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc-------------------ccceEEeeCCC--
Q psy12150         49 EQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY-------------------RERILELNASD--  106 (456)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~-------------------~~~~~e~n~~~--  106 (456)
                      +++...+.|.+.+..++.+| +||+||+|+|||++++.+++.+.+...                   ...+..+....  
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~   85 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGK   85 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTC
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcc
Confidence            56778889999999999998 999999999999999999998864211                   12344443332  


Q ss_pred             -CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCccccccccc
Q psy12150        107 -DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLT  185 (456)
Q Consensus       107 -~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~  185 (456)
                       ....+.+++....+...+..         +.++++||||+|.|+.+++++|+++||+|+.+++||+++++..++.++++
T Consensus        86 ~~i~~~~ir~l~~~~~~~~~~---------~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~  156 (207)
T d1a5ta2          86 NTLGVDAVREVTEKLNEHARL---------GGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLR  156 (207)
T ss_dssp             SSBCHHHHHHHHHHTTSCCTT---------SSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHH
T ss_pred             cccccchhhHHhhhhhhcccc---------CccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhc
Confidence             23355566555443322222         26789999999999999999999999999999999999999999999999


Q ss_pred             CCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q psy12150        186 SRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQ  240 (456)
Q Consensus       186 ~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~  240 (456)
                      |||..+.|.+++.+++..+|+     +...+++++++.+++.++||+|.+++.||
T Consensus       157 SRc~~i~~~~~~~~~~~~~L~-----~~~~~~~~~~~~i~~~s~Gs~r~al~~le  206 (207)
T d1a5ta2         157 SRCRLHYLAPPPEQYAVTWLS-----REVTMSQDALLAALRLSAGSPGAALALFQ  206 (207)
T ss_dssp             TTSEEEECCCCCHHHHHHHHH-----HHCCCCHHHHHHHHHHTTTCHHHHHHTTS
T ss_pred             ceeEEEecCCCCHHHHHHHHH-----HcCCCCHHHHHHHHHHcCCCHHHHHHHhC
Confidence            999999999999999999986     34578999999999999999999999775

>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=99.82  E-value=8.7e-20  Score=168.12  Aligned_cols=205  Identities=22%  Similarity=0.249  Sum_probs=139.8

Q ss_pred             CCcccccccHHHHHHHHHHHh-----------cCCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLS-----------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~-----------~~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~  109 (456)
                      .+|++++|.+.+++.|.+.+.           +...+ ++|||||||||||+++++++++++.     +++++++++..+
T Consensus         6 ~~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~-----~~~~i~~~~l~~   80 (247)
T d1ixza_           6 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV-----PFITASGSDFVE   80 (247)
T ss_dssp             CCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTC-----CEEEEEHHHHHH
T ss_pred             CcHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCC-----CEEEEEhHHhhh
Confidence            489999999999888776541           12233 3999999999999999999998643     677777765211


Q ss_pred             --hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHHHHHHHhc--cCcceEE
Q psy12150        110 --IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEKE--TKSTRFC  171 (456)
Q Consensus       110 --~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~Ll~~le~~--~~~~~lI  171 (456)
                        .+.....+......+..     ..|+    ||+|||+|.+...              ....|+..|+..  ...+++|
T Consensus        81 ~~~g~~~~~l~~~f~~a~~-----~~p~----Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi  151 (247)
T d1ixza_          81 MFVGVGAARVRDLFETAKR-----HAPC----IVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVM  151 (247)
T ss_dssp             SCTTHHHHHHHHHHHHHTT-----SSSE----EEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEE
T ss_pred             ccccHHHHHHHHHHHHHHH-----cCCE----EEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEE
Confidence              11222333333332211     1233    9999999977321              244566677643  3456677


Q ss_pred             EEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHhh-
Q psy12150        172 LICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCARLK-  246 (456)
Q Consensus       172 l~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~~~-  246 (456)
                      .+||.++.+.+++.+  |+. .++|++|+.++..++++..+.+.... .+..++.|++.+.| ..+.+.+.++.++..+ 
T Consensus       152 ~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~-~~~~~~~la~~t~g~s~~di~~lv~~A~l~a~  230 (247)
T d1ixza_         152 AATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLA-EDVDLALLAKRTPGFVGADLENLLNEAALLAA  230 (247)
T ss_dssp             EEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHH
T ss_pred             EeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCc-cccCHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Confidence            788999999999974  675 89999999999999999888765433 34457888998877 3333444444433322 


Q ss_pred             --CCCCCCHHHHHHHhC
Q psy12150        247 --GGEGIVNEDVLEVTG  261 (456)
Q Consensus       247 --~~~~It~~~v~~~~~  261 (456)
                        +.+.|+.+|+.++++
T Consensus       231 ~~~~~~i~~~d~~~A~~  247 (247)
T d1ixza_         231 REGRRKITMKDLEEAAS  247 (247)
T ss_dssp             HTTCSSBCHHHHHHHTC
T ss_pred             HcCCCCcCHHHHHHhhC
Confidence              567899999988764

>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=99.81  E-value=9.2e-19  Score=161.85  Aligned_cols=204  Identities=16%  Similarity=0.169  Sum_probs=142.7

Q ss_pred             cCCCCcccccccHHHHHHHHHHHh-----------cCCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         39 YRPKTIDDVIEQQEVVSVLKKCLS-----------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        39 y~P~~~~~ivg~~~~~~~l~~~l~-----------~~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      -.+-||+|++|.+.+++.|.+.+.           +...+ ++|||||||||||++++++++++..     +++.+++++
T Consensus         6 ~~~~t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~-----~~~~i~~~~   80 (256)
T d1lv7a_           6 QIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV-----PFFTISGSD   80 (256)
T ss_dssp             SSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC-----CEEEECSCS
T ss_pred             CCCCCHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCC-----CEEEEEhHH
Confidence            345689999999999988876542           12333 3999999999999999999999743     677788776


Q ss_pred             CcC------hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--------------HHHHHHHHHHHh--c
Q psy12150        107 DRG------IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------------AAQAALRRTMEK--E  164 (456)
Q Consensus       107 ~~~------~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--------------~~~~~Ll~~le~--~  164 (456)
                      ..+      ...+...+..+. .        ..||    ||+|||+|.+..              .....|+..++.  .
T Consensus        81 l~~~~~g~~~~~l~~~f~~A~-~--------~~P~----il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~  147 (256)
T d1lv7a_          81 FVEMFVGVGASRVRDMFEQAK-K--------AAPC----IIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG  147 (256)
T ss_dssp             STTSCCCCCHHHHHHHHHHHH-T--------TCSE----EEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS
T ss_pred             hhhcchhHHHHHHHHHHHHHH-H--------cCCE----EEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC
Confidence            432      233333333221 1        1233    999999987632              123556777764  3


Q ss_pred             cCcceEEEEecCcccccccccC--Cc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHH
Q psy12150        165 TKSTRFCLICNYVSCIIQPLTS--RC-SKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQ  240 (456)
Q Consensus       165 ~~~~~lIl~~~~~~kl~~~l~~--r~-~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~  240 (456)
                      ...+++|.++|.++.+.+++.+  |+ ..+.|++|+.++..++++..+++.+.. .+..+..+++.+.| ..+.+.+.++
T Consensus       148 ~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t~G~s~adi~~l~~  226 (256)
T d1lv7a_         148 NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLA-PDIDAAIIARGTPGFSGADLANLVN  226 (256)
T ss_dssp             SSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CCCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcC-cccCHHHHHHhCCCCCHHHHHHHHH
Confidence            4456788889999999999985  66 489999999999999999888765544 44557788888876 4455555555


Q ss_pred             HHHHhh---CCCCCCHHHHHHHhC
Q psy12150        241 SCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       241 ~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      .++..+   +.+.|+.+|+..++.
T Consensus       227 ~A~~~a~~~~~~~i~~~d~~~Al~  250 (256)
T d1lv7a_         227 EAALFAARGNKRVVSMVEFEKAKD  250 (256)
T ss_dssp             HHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCccCHHHHHHHHH
Confidence            544333   456789999887653

>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=99.81  E-value=1.1e-19  Score=161.68  Aligned_cols=137  Identities=16%  Similarity=0.149  Sum_probs=113.7

Q ss_pred             HHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc-ccceEEeeCCC-CcChHHHHHHHHHHHHhhccCCCC
Q psy12150         53 VVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-RERILELNASD-DRGIQVIRDKVKTFAQQTASGFNQ  130 (456)
Q Consensus        53 ~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~-~~~~~e~n~~~-~~~~~~i~~~l~~~~~~~~~~~~~  130 (456)
                      .++.++++++.+..++++|+||+|+|||+++..+++.+..... ..+++++++.. ..+.+.+++....+...+..    
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~~~~~~----   77 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPEL----   77 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSS----
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHhhCccc----
Confidence            4567899999998888999999999999999999998754322 23677887653 34788888865554433322    


Q ss_pred             CCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccccccCCceEEEecCCCH
Q psy12150        131 DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAE  198 (456)
Q Consensus       131 ~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~~l~~r~~~i~f~~~~~  198 (456)
                           +++||+||||+|.|+.+++++|++.||+|+.+++||++|+++.++.++++|||+.+.|++++.
T Consensus        78 -----~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p~~  140 (198)
T d2gnoa2          78 -----YTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPKE  140 (198)
T ss_dssp             -----SSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCHH
T ss_pred             -----CCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCchH
Confidence                 377899999999999999999999999999999999999999999999999999999987653

>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=99.76  E-value=6e-17  Score=150.90  Aligned_cols=223  Identities=18%  Similarity=0.222  Sum_probs=153.9

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHHhc------CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCLSG------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      ..++...|+|.+   ++|++..++.+.+++..      ..+++++|+||||||||++++.+++.+... ....++.+++.
T Consensus         6 ~~~l~~~y~p~~---l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~-~~~~~~~~~~~   81 (276)
T d1fnna2           6 DSVFSPSYVPKR---LPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDK-TTARFVYINGF   81 (276)
T ss_dssp             GGGGSTTCCCSC---CTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTS-CCCEEEEEETT
T ss_pred             cccCCCCCCCCC---CCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcc-cCCcEEEecch
Confidence            457888999965   59999888888877742      234569999999999999999999998653 23456677766


Q ss_pred             CCcChHHHHHHHHHHHHhhccCCCCCCC--------------CCCCcEEEEEcCCCCccHHHHHHHHHHHH----hccCc
Q psy12150        106 DDRGIQVIRDKVKTFAQQTASGFNQDGK--------------PCPPFKIVILDEADSMTHAAQAALRRTME----KETKS  167 (456)
Q Consensus       106 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~--------------~~~~~~iviIDE~d~l~~~~~~~Ll~~le----~~~~~  167 (456)
                      ...............   ........+.              ......++++|+++.+.......+...+.    .....
T Consensus        82 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~  158 (276)
T d1fnna2          82 IYRNFTAIIGEIARS---LNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFR  158 (276)
T ss_dssp             TCCSHHHHHHHHHHH---TTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCC
T ss_pred             hhhhhhhhhhhhHHh---hhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccc
Confidence            543333222111110   0000000000              00234588899999998776655554433    22344


Q ss_pred             ceEEEEecCc---ccccccccCCce--EEEecCCCHHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHc---------CCC
Q psy12150        168 TRFCLICNYV---SCIIQPLTSRCS--KFRFKPLAENTMLTRLQYICEQ--ESVMCDFKALETLVETS---------GGD  231 (456)
Q Consensus       168 ~~lIl~~~~~---~kl~~~l~~r~~--~i~f~~~~~~el~~~l~~~~~~--~~~~i~~~~l~~L~~~s---------~gd  231 (456)
                      +.+|++++..   ..+.+.+.+|+.  .+.|++++.+++.+++..+++.  ....+++++++.+++.+         +||
T Consensus       159 ~~~i~~~~~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~~~~~~G~  238 (276)
T d1fnna2         159 IALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGD  238 (276)
T ss_dssp             EEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCC
T ss_pred             eEEeecCCchhhhhhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhhhhhcCCC
Confidence            5666776653   456667777763  6999999999999999998876  34458999999998764         799


Q ss_pred             HHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        232 MRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       232 lr~~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      +|.+++.|+.+...+   +...|+.+||+++..
T Consensus       239 ~R~a~~ll~~a~~~A~~~~~~~I~~edv~~A~~  271 (276)
T d1fnna2         239 ARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSK  271 (276)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            999999999887665   567899999998754

>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=99.72  E-value=6.9e-17  Score=151.37  Aligned_cols=227  Identities=18%  Similarity=0.162  Sum_probs=145.5

Q ss_pred             CCcchhccCCCCcccccccHHHHHHHHHHH----hcCCCC-----eEEEECCCCCcHHHHHHHHHHHhcCC----ccccc
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVVSVLKKCL----SGADLP-----HFLFYGPPGTGKTSTMIAACHQLFGD----MYRER   98 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~~~l~~~l----~~~~~~-----~~Ll~G~~G~GKT~~a~~l~~~l~~~----~~~~~   98 (456)
                      ..+|.++|+|.+   +.|++..++.|.+++    ..+..+     .++||||||||||++++++++.+...    .....
T Consensus         6 ~~~l~~~~~P~~---~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~   82 (287)
T d1w5sa2           6 RRVFDENYIPPE---LRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVK   82 (287)
T ss_dssp             GGGGSTTCCCSS---CSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEE
T ss_pred             hhhcCCccCCCC---CCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCce
Confidence            357999999964   578877777776554    333322     26789999999999999999987531    12235


Q ss_pred             eEEeeCCCCcChHHHHHHHHHHHHhhccCCCCC-----------CCCCCCcEEEEEcCCCCcc------HHHHHHHHHHH
Q psy12150         99 ILELNASDDRGIQVIRDKVKTFAQQTASGFNQD-----------GKPCPPFKIVILDEADSMT------HAAQAALRRTM  161 (456)
Q Consensus        99 ~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~-----------~~~~~~~~iviIDE~d~l~------~~~~~~Ll~~l  161 (456)
                      +.++++...........................           ........++++||+|.+.      .+....+...+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~  162 (287)
T d1w5sa2          83 QAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVH  162 (287)
T ss_dssp             EEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHH
T ss_pred             eeeeccccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHH
Confidence            556666554333222211111000000000000           0000244588999998773      23444555544


Q ss_pred             Hhcc-----CcceEEEEecCc------ccccccccCC-ceEEEecCCCHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHH
Q psy12150        162 EKET-----KSTRFCLICNYV------SCIIQPLTSR-CSKFRFKPLAENTMLTRLQYICEQE--SVMCDFKALETLVET  227 (456)
Q Consensus       162 e~~~-----~~~~lIl~~~~~------~kl~~~l~~r-~~~i~f~~~~~~el~~~l~~~~~~~--~~~i~~~~l~~L~~~  227 (456)
                      +...     ....+|++++..      ....+.+.+| +..++|++++.+++.+++..+++..  ...+++++++.+++.
T Consensus       163 ~~l~~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~  242 (287)
T d1w5sa2         163 EEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDV  242 (287)
T ss_dssp             HHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHH
T ss_pred             HhcchhhcccceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHH
Confidence            4322     234455555533      2234555555 5699999999999999999998764  345899999999987


Q ss_pred             c------CCCHHHHHHHHHHHHHhh---CCCCCCHHHHHHHhC
Q psy12150        228 S------GGDMRRAITCLQSCARLK---GGEGIVNEDVLEVTG  261 (456)
Q Consensus       228 s------~gdlr~~~~~L~~~~~~~---~~~~It~~~v~~~~~  261 (456)
                      +      .||+|.+++.|+.++..+   +.+.||.++|++++.
T Consensus       243 ~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~~~It~~~V~~A~~  285 (287)
T d1w5sa2         243 YGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVS  285 (287)
T ss_dssp             HCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             HhccccCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence            6      699999999999887665   568999999998764

>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=99.72  E-value=7.1e-17  Score=149.75  Aligned_cols=173  Identities=21%  Similarity=0.254  Sum_probs=118.0

Q ss_pred             CcccccccHHHHHHHHHHHh-----------cC-CCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC
Q psy12150         43 TIDDVIEQQEVVSVLKKCLS-----------GA-DLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG  109 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~-----------~~-~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~  109 (456)
                      +|++++|.+..++.|++.+.           .| .++ .+|||||||||||++++++++.+..     +++.+++++...
T Consensus         2 ~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~-----~~~~i~~~~l~~   76 (258)
T d1e32a2           2 GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-----FFFLINGPEIMS   76 (258)
T ss_dssp             CGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTC-----EEEEECHHHHTT
T ss_pred             ChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCC-----eEEEEEchhhcc
Confidence            69999999999999888752           12 233 3999999999999999999998644     566666543111


Q ss_pred             --hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHH-----------HHHHHHHHH--hccCcceEEEEe
Q psy12150        110 --IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA-----------QAALRRTME--KETKSTRFCLIC  174 (456)
Q Consensus       110 --~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~-----------~~~Ll~~le--~~~~~~~lIl~~  174 (456)
                        .+.....+......+...     .|+    ||++||+|.+....           ...++..+.  .....+++|.+|
T Consensus        77 ~~~g~~~~~l~~~f~~A~~~-----~p~----il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tT  147 (258)
T d1e32a2          77 KLAGESESNLRKAFEEAEKN-----APA----IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAAT  147 (258)
T ss_dssp             SCTTHHHHHHHHHHHHHHHT-----CSE----EEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEE
T ss_pred             cccccHHHHHHHHHHHHHhc-----CCe----EEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEEEeC
Confidence              111122222222222111     233    99999999986431           233333333  233456788899


Q ss_pred             cCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q psy12150        175 NYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG  230 (456)
Q Consensus       175 ~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g  230 (456)
                      |.++.+.+++++  |+. .++|+.|+.++...+++..+++.... ++..++.|++.+.|
T Consensus       148 n~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t~G  205 (258)
T d1e32a2         148 NRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHG  205 (258)
T ss_dssp             SCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBC-TTCCHHHHHHHCTT
T ss_pred             CCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccc-cccchhhhhhcccC
Confidence            999999999987  664 89999999999999999888654332 23347889999877

>d1sxjb1 a.80.1.1 (B:231-322) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.71  E-value=2e-17  Score=127.70  Aligned_cols=89  Identities=12%  Similarity=0.248  Sum_probs=83.3

Q ss_pred             CCchHHHHHhhhCChHHHHHHHHH-HHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHH
Q psy12150        364 IPNPWIEKLLKVDSFQVLEKYIED-LILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQIL  442 (456)
Q Consensus       364 ~~~~~~~~~~~~~~~~~~~~~~~~-l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~  442 (456)
                      |+|..|++++.+++|+++++.+.. ++++|||..||+++||+++.+..++|+..|+++++.+|++|+||++|++|++||.
T Consensus         1 P~P~~I~~il~~~~f~~a~~~l~~~l~~~Gys~~DIi~~l~~~i~~~~~~~e~~k~~il~~la~~~~rl~~G~~e~lQL~   80 (92)
T d1sxjb1           1 PHPLIVKKMLLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVGTYLQLA   80 (92)
T ss_dssp             CCHHHHHHHHSCSSHHHHHHHHHHTTTTTTCCHHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHHHHHHTTCCCHHHHH
T ss_pred             CCHHHHHHHHHhCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcCCCcHHHHH
Confidence            567799999999999999999988 5689999999999999999987689999999999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q psy12150        443 DLGSIVIKAN  452 (456)
Q Consensus       443 ~l~~~~~~~~  452 (456)
                      +|++.|+++.
T Consensus        81 ~lla~i~~i~   90 (92)
T d1sxjb1          81 SMLAKIHKLN   90 (92)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999999874

>d1sxjc1 a.80.1.1 (C:239-333) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.67  E-value=2.3e-16  Score=122.65  Aligned_cols=90  Identities=13%  Similarity=0.168  Sum_probs=81.4

Q ss_pred             CCchHHHHHhh---hCChHHHHHHHHHHH-HcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhH
Q psy12150        364 IPNPWIEKLLK---VDSFQVLEKYIEDLI-LEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYI  439 (456)
Q Consensus       364 ~~~~~~~~~~~---~~~~~~~~~~~~~l~-~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~  439 (456)
                      |.|.+|.++++   +++|.++++.++.++ ++|||..||+.+||+++.+.+..++.+|+++++.+|++|+||++|++|++
T Consensus         1 P~P~~I~~il~~~l~~~f~~a~~~l~~l~~~~G~s~~dIl~~l~~~i~~~~~~~~~~k~~ll~~la~~e~rL~~G~~e~l   80 (95)
T d1sxjc1           1 PRPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYSISKGGNDQI   80 (95)
T ss_dssp             CCHHHHHHHHHHHHTSCHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHHHHTTCCCHHH
T ss_pred             CCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHcCCCcHH
Confidence            56778998886   589999999999985 78999999999999999998444578999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhc
Q psy12150        440 QILDLGSIVIKANK  453 (456)
Q Consensus       440 ql~~l~~~~~~~~~  453 (456)
                      ||.+|+++|+++.+
T Consensus        81 QL~~lla~~~~~~e   94 (95)
T d1sxjc1          81 QGSAVIGAIKASFE   94 (95)
T ss_dssp             HHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999998764

>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=99.65  E-value=4.3e-17  Score=151.74  Aligned_cols=189  Identities=20%  Similarity=0.240  Sum_probs=119.3

Q ss_pred             CC-CcccccccHHHHHHHHHHHh-----------cCCC-C-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         41 PK-TIDDVIEQQEVVSVLKKCLS-----------GADL-P-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        41 P~-~~~~ivg~~~~~~~l~~~l~-----------~~~~-~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      |+ +|+++.|.+++++.|.+++.           .|.. + ++|||||||||||+++++++++++.     +++.+++++
T Consensus         2 p~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~-----~~~~~~~~~   76 (265)
T d1r7ra3           2 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQA-----NFISIKGPE   76 (265)
T ss_dssp             CCCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTC-----EEEEECHHH
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCC-----cEEEEEHHH
Confidence            55 89999999888777776542           1222 2 3999999999999999999999754     566666543


Q ss_pred             Cc--ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------------HHHHHHHHHHhc--cCcc
Q psy12150        107 DR--GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------------AQAALRRTMEKE--TKST  168 (456)
Q Consensus       107 ~~--~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------------~~~~Ll~~le~~--~~~~  168 (456)
                      ..  ..+.....+..+...+...     .||    +|+|||+|.+...              ....|+..++..  ...+
T Consensus        77 l~~~~~~~~~~~l~~~f~~A~~~-----~p~----il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v  147 (265)
T d1r7ra3          77 LLTMWFGESEANVREIFDKARQA-----APC----VLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNV  147 (265)
T ss_dssp             HHTSCTTTHHHHHHHHHHHHHHT-----CSE----EEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CC
T ss_pred             hhhccccchHHHHHHHHHHHHhc-----CCc----ceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCE
Confidence            11  1112222333322222111     223    9999999988532              124455555422  2346


Q ss_pred             eEEEEecCcccccccccC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHH
Q psy12150        169 RFCLICNYVSCIIQPLTS--RCS-KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGG-DMRRAITCLQSCAR  244 (456)
Q Consensus       169 ~lIl~~~~~~kl~~~l~~--r~~-~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~g-dlr~~~~~L~~~~~  244 (456)
                      ++|.++|.++.+.+++++  |+. .++|++|+.++..++++..+++.... .+..++.|++.+.| +.+.+.+.++.+..
T Consensus       148 ~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~g~s~~di~~lv~~A~~  226 (265)
T d1r7ra3         148 FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQRACK  226 (265)
T ss_dssp             EEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC-----CCCCHHHHHHHCSSCCHHHHHHHHHHHH
T ss_pred             EEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCch-hhhhHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence            788888999999999976  555 89999999999999998776542221 22246777777765 33444444444433

>d1iqpa1 a.80.1.1 (A:233-327) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.65  E-value=6.7e-16  Score=119.89  Aligned_cols=89  Identities=22%  Similarity=0.334  Sum_probs=82.1

Q ss_pred             CCchHHHHHhh---hCChHHHHHHHHHH-HHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhH
Q psy12150        364 IPNPWIEKLLK---VDSFQVLEKYIEDL-ILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYI  439 (456)
Q Consensus       364 ~~~~~~~~~~~---~~~~~~~~~~~~~l-~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~  439 (456)
                      .+|++|.++++   +++|.+++..+..+ ..+|||..||+++||+++.+. ++|+..++++++.+|++|+||++|++|.+
T Consensus         2 a~P~~I~~il~~~l~~~f~~a~~~l~~l~~~~G~s~~dIl~~l~~~v~~~-~~~~~~k~~ll~~la~~d~rL~~G~~e~i   80 (95)
T d1iqpa1           2 ARPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNL-PIEEPKKVLLADKIGEYNFRLVEGANEII   80 (95)
T ss_dssp             CCHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHGGGS-SSCHHHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             CCcHHHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhc-CCCHHHHHHHHHHHHHHHHHHHcCCChHH
Confidence            36778888885   59999999999997 578999999999999999987 79999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhc
Q psy12150        440 QILDLGSIVIKANK  453 (456)
Q Consensus       440 ql~~l~~~~~~~~~  453 (456)
                      ||.+|+++|+.+.+
T Consensus        81 QL~alla~~~~i~~   94 (95)
T d1iqpa1          81 QLEALLAQFTLIGK   94 (95)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999998753

>d1sxjd1 a.80.1.1 (D:263-353) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.64  E-value=5e-16  Score=119.72  Aligned_cols=87  Identities=22%  Similarity=0.416  Sum_probs=79.5

Q ss_pred             CchHHHHHhh---hCChHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHH
Q psy12150        365 PNPWIEKLLK---VDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQI  441 (456)
Q Consensus       365 ~~~~~~~~~~---~~~~~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql  441 (456)
                      |+..++++++   +++|+++++.++.++.+|||..||+++||+++.+..++|+..|.++++.+|++|+||++|++|++||
T Consensus         2 P~~~i~~il~~~~~~~f~~a~~~i~~l~~~Gys~~dIl~~l~~~vv~~~~i~~~~k~~i~~~la~~d~rL~~G~~e~lQL   81 (91)
T d1sxjd1           2 PHDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWLLFTTDSRLNNGTNEHIQL   81 (91)
T ss_dssp             CSHHHHHHHHHHHSCCHHHHHHHHHHHHHTSCCCTTHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTTCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHcCCChHHHH
Confidence            5566788775   5899999999999999999999999999998776558999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy12150        442 LDLGSIVIKA  451 (456)
Q Consensus       442 ~~l~~~~~~~  451 (456)
                      .+|++.++++
T Consensus        82 ~~lla~i~~i   91 (91)
T d1sxjd1          82 LNLLVKISQL   91 (91)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHcC
Confidence            9999999863

>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=99.61  E-value=4e-14  Score=130.27  Aligned_cols=218  Identities=15%  Similarity=0.134  Sum_probs=155.4

Q ss_pred             CcchhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc-----ccceEEeeCCCC
Q psy12150         33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----RERILELNASDD  107 (456)
Q Consensus        33 ~~w~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~-----~~~~~e~n~~~~  107 (456)
                      ..|.++-+-..++.++|++..++++...+.+....|++|.||||+|||++++.+++.+..+..     ...+++++....
T Consensus         6 ~dlt~~a~~~~ld~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l   85 (268)
T d1r6bx2           6 TNLNQLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL   85 (268)
T ss_dssp             CBHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--
T ss_pred             HHHHHHHHcCCCCcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH
Confidence            345555556667889999999999999998888788999999999999999999998754321     234666665542


Q ss_pred             ----cChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH---------HHHHHHHHHHHhccCcceEEEEe
Q psy12150        108 ----RGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH---------AAQAALRRTMEKETKSTRFCLIC  174 (456)
Q Consensus       108 ----~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~---------~~~~~Ll~~le~~~~~~~lIl~~  174 (456)
                          ...+...+.+..........         +.-|+||||++.+..         +..+.|..+|..+  ...+|.+|
T Consensus        86 iag~~~~g~~e~r~~~i~~~~~~~---------~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg--~i~vIgat  154 (268)
T d1r6bx2          86 LAGTKYRGDFEKRFKALLKQLEQD---------TNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG--KIRVIGST  154 (268)
T ss_dssp             -CCCCCSSCHHHHHHHHHHHHSSS---------SCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC--CCEEEEEE
T ss_pred             hccCccchhHHHHHHHHHHHhhcc---------CCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCC--CCeEEEeC
Confidence                22344455554444332211         334899999999842         2334455566643  45666666


Q ss_pred             cC--c---ccccccccCCceEEEecCCCHHHHHHHHHHHHH----HcCCCCCHHHHHHHHHHc------CCCHHHHHHHH
Q psy12150        175 NY--V---SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE----QESVMCDFKALETLVETS------GGDMRRAITCL  239 (456)
Q Consensus       175 ~~--~---~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~----~~~~~i~~~~l~~L~~~s------~gdlr~~~~~L  239 (456)
                      +.  +   ..-.++|.+|+..+.+.+|+.++...+|+....    ..++.++++++..++..+      ..-+.+++..|
T Consensus       155 T~eey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~~~~e~~h~v~~~~~al~~~v~ls~ryi~~~~~PdKAIdll  234 (268)
T d1r6bx2         155 TYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVI  234 (268)
T ss_dssp             CHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHH
T ss_pred             CHHHHHHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhhHHHhccCCEEeChHHHHHHHHHHHhhccCCCCCcHHHHHH
Confidence            53  2   234678999999999999999999999876543    478999999999988776      35688999999


Q ss_pred             HHHHHhh-------CCCCCCHHHHHHHhC
Q psy12150        240 QSCARLK-------GGEGIVNEDVLEVTG  261 (456)
Q Consensus       240 ~~~~~~~-------~~~~It~~~v~~~~~  261 (456)
                      +.++..+       ....|+.+|+..++.
T Consensus       235 Dea~a~~~~~~~~~~~~~i~~~di~~~i~  263 (268)
T d1r6bx2         235 DEAGARARLMPVSKRKKTVNVADIESVVA  263 (268)
T ss_dssp             HHHHHHHHHSSSCCCCCSCCHHHHHHHHH
T ss_pred             HHHHHHHHhhccccCcccCCHHHHHHHHH
Confidence            9887654       234578888876654

>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=99.59  E-value=1.5e-14  Score=132.63  Aligned_cols=210  Identities=15%  Similarity=0.135  Sum_probs=140.5

Q ss_pred             cccccHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHh
Q psy12150         46 DVIEQQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQ  123 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~  123 (456)
                      ++||+...++.+.+.++...  ..+++|+||+||||+.+|++++.....  ....++.+++....... ....+......
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s~~--~~~~~~~~~~~~~~~~~-~~~~lfg~~~~   77 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSDR--SKEPFVALNVASIPRDI-FEAELFGYEKG   77 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHSTT--TTSCEEEEETTTSCHHH-HHHHHHCBCTT
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCC--cccccccchhhhhhhcc-cHHHhcCcccC
Confidence            57898888888877776432  234999999999999999999986433  23367778887643222 22211110000


Q ss_pred             hccCCCCCCCCC----CCcEEEEEcCCCCccHHHHHHHHHHHHhcc-----------CcceEEEEecCc-------cccc
Q psy12150        124 TASGFNQDGKPC----PPFKIVILDEADSMTHAAQAALRRTMEKET-----------KSTRFCLICNYV-------SCII  181 (456)
Q Consensus       124 ~~~~~~~~~~~~----~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-----------~~~~lIl~~~~~-------~kl~  181 (456)
                      .+.+ .....+.    ++..++||||+|.|+...|..|++++++..           ..+++|++++..       ..+.
T Consensus        78 ~~~~-~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI~~s~~~l~~l~~~~~f~  156 (247)
T d1ny5a2          78 AFTG-AVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGKFR  156 (247)
T ss_dssp             SSTT-CCSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTSSC
T ss_pred             CcCC-cccccCCHHHccCCCEEEEeChHhCCHHHHHHHHHHHHhCCEEECCCCCceecCeEEEEecCCCHHHHHHcCCCc
Confidence            0000 0000000    233489999999999999999999997532           245688877643       1234


Q ss_pred             ccccCCce--EEEecCCC--HHHHHHHHHHH----HHHcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhhCCC
Q psy12150        182 QPLTSRCS--KFRFKPLA--ENTMLTRLQYI----CEQESV---MCDFKALETLVETS-GGDMRRAITCLQSCARLKGGE  249 (456)
Q Consensus       182 ~~l~~r~~--~i~f~~~~--~~el~~~l~~~----~~~~~~---~i~~~~l~~L~~~s-~gdlr~~~~~L~~~~~~~~~~  249 (456)
                      +.|..|+.  .+.++|+.  .+++..++...    +.+.+.   .+++++++.|..+. +||++++.+.++.++..+.+.
T Consensus       157 ~~L~~~l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~ls~~al~~L~~~~WPGNl~EL~~~l~~a~~~~~~~  236 (247)
T d1ny5a2         157 EDLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSEGK  236 (247)
T ss_dssp             HHHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCCSS
T ss_pred             HHHHhhcCeeeecCCChhhchhhHhhhhhhhhhhhhhhcCCCCCCCCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCC
Confidence            44555543  67788885  35676555544    444443   47899999998875 999999999999999888888


Q ss_pred             CCCHHHHHHH
Q psy12150        250 GIVNEDVLEV  259 (456)
Q Consensus       250 ~It~~~v~~~  259 (456)
                      .|+.+|+..+
T Consensus       237 ~I~~~dl~~l  246 (247)
T d1ny5a2         237 FIDRGELSCL  246 (247)
T ss_dssp             EECHHHHHHH
T ss_pred             eECHHHcccc
Confidence            9999999765

>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=99.58  E-value=1.3e-14  Score=130.03  Aligned_cols=184  Identities=17%  Similarity=0.249  Sum_probs=124.7

Q ss_pred             Cccccc-c--cHHHHHHHHHHHhcCC--CCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHH-
Q psy12150         43 TIDDVI-E--QQEVVSVLKKCLSGAD--LPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDK-  116 (456)
Q Consensus        43 ~~~~iv-g--~~~~~~~l~~~l~~~~--~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~-  116 (456)
                      ||++++ |  +..+...++++++...  ..+++||||+|+|||++++++++++.....  .+++++..+..  ..+.+. 
T Consensus         8 tFdnF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~--~~~~~~~~~~~--~~~~~~~   83 (213)
T d1l8qa2           8 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGY--RVIYSSADDFA--QAMVEHL   83 (213)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTC--CEEEEEHHHHH--HHHHHHH
T ss_pred             ChhhccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCcc--ceEEechHHHH--HHHHHHH
Confidence            788876 4  5555677788776533  234999999999999999999999865433  45555544311  111111 


Q ss_pred             ----HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--HHHHHHHHHHHhc-cCcceEEEEecCc-c---ccccccc
Q psy12150        117 ----VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--AAQAALRRTMEKE-TKSTRFCLICNYV-S---CIIQPLT  185 (456)
Q Consensus       117 ----l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--~~~~~Ll~~le~~-~~~~~lIl~~~~~-~---kl~~~l~  185 (456)
                          ...+.....           ...+|+|||+|.+..  ..+..|..+++.. .....+|++++.. .   ...+.|.
T Consensus        84 ~~~~~~~~~~~~~-----------~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~  152 (213)
T d1l8qa2          84 KKGTINEFRNMYK-----------SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLV  152 (213)
T ss_dssp             HHTCHHHHHHHHH-----------TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHH
T ss_pred             HccchhhHHHHHh-----------hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHH
Confidence                111111110           223999999999853  4455666655432 2334566666643 2   2456687


Q ss_pred             CCce---EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy12150        186 SRCS---KFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCA  243 (456)
Q Consensus       186 ~r~~---~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~  243 (456)
                      +|+.   .+.++ |+.++..++|++.+...|+.++++++++|++++ .|+|.+...|..+.
T Consensus       153 SRL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~~~v~~yl~~~~-~~~R~L~~~l~~l~  211 (213)
T d1l8qa2         153 SRFEGGILVEIE-LDNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-KNVREIEGKIKLIK  211 (213)
T ss_dssp             HHHHTSEEEECC-CCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-SSHHHHHHHHHHHH
T ss_pred             HHhhCceEEEEC-CCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHhc-CcHHHHHHHHHHhh
Confidence            8854   77785 577889999999999999999999999999998 58999888887665

>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=99.45  E-value=1.6e-12  Score=118.86  Aligned_cols=155  Identities=14%  Similarity=0.188  Sum_probs=96.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc---ChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR---GIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDE  145 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~---~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE  145 (456)
                      +|||||||||||+++++++++++.     +++.+++++..   ........+......+...         ...||||||
T Consensus        43 vLL~GppGtGKT~la~alA~~~~~-----~~~~i~~~~~~~g~~~~~~~~~i~~if~~A~~~---------~p~il~iDE  108 (246)
T d1d2na_          43 VLLEGPPHSGKTALAAKIAEESNF-----PFIKICSPDKMIGFSETAKCQAMKKIFDDAYKS---------QLSCVVVDD  108 (246)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTC-----SEEEEECGGGCTTCCHHHHHHHHHHHHHHHHTS---------SEEEEEECC
T ss_pred             EEEECcCCCCHHHHHHHHhhcccc-----cccccccccccccccccchhhhhhhhhhhhhhc---------ccceeehhh
Confidence            999999999999999999998754     57777765421   1112122333333332221         223999999


Q ss_pred             CCCcc----------HHHHHHHHHHHHhccC---cceEEEEecCccccccc-ccCCce-EEEecCCC-HHHHHHHHHHHH
Q psy12150        146 ADSMT----------HAAQAALRRTMEKETK---STRFCLICNYVSCIIQP-LTSRCS-KFRFKPLA-ENTMLTRLQYIC  209 (456)
Q Consensus       146 ~d~l~----------~~~~~~Ll~~le~~~~---~~~lIl~~~~~~kl~~~-l~~r~~-~i~f~~~~-~~el~~~l~~~~  209 (456)
                      +|.+.          ......|+..++....   .+++|.+||.++.+.++ +.+|+. .++++.++ .+++...+... 
T Consensus       109 id~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn~~~~ld~~~~~~rF~~~i~~P~~~~r~~il~~l~~~-  187 (246)
T d1d2na_         109 IERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELL-  187 (246)
T ss_dssp             HHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHH-
T ss_pred             hhhHhhhcccccchhHHHHHHHHHHhcCCCccccceeeeeccCChhhccchhhcCccceEEecCCchhHHHHHHHHHhc-
Confidence            98763          2334566666665432   35677788887777654 667765 67775443 34454444322 


Q ss_pred             HHcCCCCCHHHHHHHHHHcCC-----CHHHHHHHHHHH
Q psy12150        210 EQESVMCDFKALETLVETSGG-----DMRRAITCLQSC  242 (456)
Q Consensus       210 ~~~~~~i~~~~l~~L~~~s~g-----dlr~~~~~L~~~  242 (456)
                          ..+++.....+++.+.|     .++.+++.++.+
T Consensus       188 ----~~~~~~~~~~i~~~~~g~~~~~~ik~ll~~ie~a  221 (246)
T d1d2na_         188 ----GNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMS  221 (246)
T ss_dssp             ----TCSCHHHHHHHHHHHTTSEEEECHHHHHHHHHHH
T ss_pred             ----cCCChHHHHHHHHHcCCCccchhHHHHHHHHHHH
Confidence                34677778888887766     467666666543

>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=99.43  E-value=6.7e-13  Score=128.71  Aligned_cols=201  Identities=16%  Similarity=0.145  Sum_probs=136.0

Q ss_pred             hhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc-----ccceEEeeCCCCcC-
Q psy12150         36 VEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY-----RERILELNASDDRG-  109 (456)
Q Consensus        36 ~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~-----~~~~~e~n~~~~~~-  109 (456)
                      .++-+-..++.++|++..++++...+.+....|.+|.||||+|||++++.+++.+..+..     ...++.++...... 
T Consensus        13 ~~~a~~g~ld~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag   92 (387)
T d1qvra2          13 TRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAG   92 (387)
T ss_dssp             HHHHHTTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC------
T ss_pred             HHHHHcCCCCCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcc
Confidence            334445567889999999999999998877777899999999999999999987654322     23567777665221 


Q ss_pred             ---hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccH--------HHHHHHHHHHHhccCcceEEEEecC--
Q psy12150        110 ---IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTH--------AAQAALRRTMEKETKSTRFCLICNY--  176 (456)
Q Consensus       110 ---~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~--------~~~~~Ll~~le~~~~~~~lIl~~~~--  176 (456)
                         .+...+.+..........        .+.-|+||||++.+..        +..+.|..+|..+.  +.+|.+++.  
T Consensus        93 ~~~~g~~e~r~~~i~~~~~~~--------~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg~--~~~I~~tT~~e  162 (387)
T d1qvra2          93 AKYRGEFEERLKAVIQEVVQS--------QGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGE--LRLIGATTLDE  162 (387)
T ss_dssp             -----CHHHHHHHHHHHHHTT--------CSSEEEEECCC-------------------HHHHHTTC--CCEEEEECHHH
T ss_pred             cCcchhHHHHHHHHHHHhccC--------CCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCCC--cceeeecCHHH
Confidence               234444444433322111        0123799999999953        23466778888754  455555542  


Q ss_pred             c--ccccccccCCceEEEecCCCHHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHc------CCCHHHHHHHHHHHHH
Q psy12150        177 V--SCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQ----ESVMCDFKALETLVETS------GGDMRRAITCLQSCAR  244 (456)
Q Consensus       177 ~--~kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~----~~~~i~~~~l~~L~~~s------~gdlr~~~~~L~~~~~  244 (456)
                      +  ..-.++|.+|++.|.+.+|+.++...+|+.....    .++.++++++...+..+      ..-+.+++..|+.+++
T Consensus       163 y~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~~~~e~~h~v~~~~~ai~~~v~ls~ryi~~r~~PdKAidlld~a~a  242 (387)
T d1qvra2         163 YREIEKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAA  242 (387)
T ss_dssp             HHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHH
T ss_pred             HHHhcccHHHHHhcccccCCCCcHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHhcccccccccChhhHHHHHHHHHH
Confidence            1  1236889999999999999999999998876653    68999999999988875      3578999999999887


Q ss_pred             hh
Q psy12150        245 LK  246 (456)
Q Consensus       245 ~~  246 (456)
                      ..
T Consensus       243 ~~  244 (387)
T d1qvra2         243 RL  244 (387)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>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=99.37  E-value=1.7e-12  Score=122.86  Aligned_cols=169  Identities=17%  Similarity=0.289  Sum_probs=119.6

Q ss_pred             cccccHHHHHHHHHHHhc--------CCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHH--
Q psy12150         46 DVIEQQEVVSVLKKCLSG--------ADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIR--  114 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~--------~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~--  114 (456)
                      .++||+++++.+...+..        .++. .++|+||+|+|||.+|+.+++.+.+...  +++.++++.......+.  
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~--~~~~~~~~~~~~~~~~~~L  101 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEE--AMIRIDMTEYMEKHAVSRL  101 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGG--GEEEECTTTCCSSGGGGGC
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCc--ceEEEeccccccchhhhhh
Confidence            578999999887666531        1222 2899999999999999999999865433  67778777644322111  


Q ss_pred             -------------HHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc-----------cCcceE
Q psy12150        115 -------------DKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRF  170 (456)
Q Consensus       115 -------------~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~-----------~~~~~l  170 (456)
                                   ..+.+....            .++.||++||+|.+.++.++.|++++++.           ..++++
T Consensus       102 ~g~~~gyvG~~~~~~l~~~~~~------------~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~  169 (315)
T d1qvra3         102 IGAPPGYVGYEEGGQLTEAVRR------------RPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVI  169 (315)
T ss_dssp             --------------CHHHHHHH------------CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEE
T ss_pred             cCCCCCCcCcccCChHHHHHHh------------CCCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCcceEE
Confidence                         112222211            14559999999999999999999999763           135778


Q ss_pred             EEEecC--------------------------cccccccccCCce-EEEecCCCHHHHHHHHHHHHHH-------cC--C
Q psy12150        171 CLICNY--------------------------VSCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ-------ES--V  214 (456)
Q Consensus       171 Il~~~~--------------------------~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~-------~~--~  214 (456)
                      |+++|-                          ...+.+.+.+|+. ++.|.+++.+++.+++...+.+       .+  +
T Consensus       170 i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~Ii~F~~L~~~~~~~I~~~~l~~l~~rl~~~~i~l  249 (315)
T d1qvra3         170 ILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISL  249 (315)
T ss_dssp             EEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEE
T ss_pred             EEecccChHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHhcCCeeeeccchhhhhhHHHHHHHHHHHHHHHHhccccc
Confidence            888772                          1224566788877 6689999999999888655442       23  4


Q ss_pred             CCCHHHHHHHHHHc
Q psy12150        215 MCDFKALETLVETS  228 (456)
Q Consensus       215 ~i~~~~l~~L~~~s  228 (456)
                      .+++++++.|++.+
T Consensus       250 ~i~~~~~~~L~~~~  263 (315)
T d1qvra3         250 ELTEAAKDFLAERG  263 (315)
T ss_dssp             EECHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHhC
Confidence            57899999999874

>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=99.37  E-value=4e-13  Score=127.35  Aligned_cols=151  Identities=18%  Similarity=0.236  Sum_probs=94.2

Q ss_pred             ccccHHHHHHHHHHHhc--------------CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC---
Q psy12150         47 VIEQQEVVSVLKKCLSG--------------ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG---  109 (456)
Q Consensus        47 ivg~~~~~~~l~~~l~~--------------~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~---  109 (456)
                      ++||+++++.+..++.+              ..+.++||+||||||||.+|+++++.+..     +++.++++....   
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~-----~~~~i~~s~~~~~~~   90 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA-----PFIKVEATKFTEVGY   90 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGSSCCS
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcccc-----chhccccccccccee
Confidence            68999999988776621              12344999999999999999999999754     455666654321   


Q ss_pred             -hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH------------HHHHHHHHHHhc----------cC
Q psy12150        110 -IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA------------AQAALRRTMEKE----------TK  166 (456)
Q Consensus       110 -~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~------------~~~~Ll~~le~~----------~~  166 (456)
                       .......+......+.........+    .|||+||+|.+.+.            .++.|+..++..          ..
T Consensus        91 ~~~~~~~~~~~~f~~a~~~~~~~~~~----~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s  166 (309)
T d1ofha_          91 VGKEVDSIIRDLTDSAGGAIDAVEQN----GIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTD  166 (309)
T ss_dssp             GGGSTTHHHHHHHHTTTTCHHHHHHH----CEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECT
T ss_pred             EeeeccccccccchhhhcccccccCC----ceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecCCeEEEcc
Confidence             1111122222221110000000012    29999999998642            345677777642          12


Q ss_pred             cceEEEEe----cCcccccccccCCce-EEEecCCCHHHHHHHHH
Q psy12150        167 STRFCLIC----NYVSCIIQPLTSRCS-KFRFKPLAENTMLTRLQ  206 (456)
Q Consensus       167 ~~~lIl~~----~~~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~  206 (456)
                      ++.||++.    +.+..+.+.+..|+. .+.|.+++..++.+++.
T Consensus       167 ~ilfi~~ga~~~~~~~~~~p~l~~R~~~~i~~~~~~~~~~~~Il~  211 (309)
T d1ofha_         167 HILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILT  211 (309)
T ss_dssp             TCEEEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHH
T ss_pred             ceeEEeccchhhcCcccchhhhhhhhheeeeccCCCHHHHHHHHH
Confidence            23344432    345667888888876 78999999999988864

>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=99.34  E-value=4e-12  Score=121.82  Aligned_cols=216  Identities=14%  Similarity=0.136  Sum_probs=123.5

Q ss_pred             CcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC-------Cc-----------c---------
Q psy12150         43 TIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG-------DM-----------Y---------   95 (456)
Q Consensus        43 ~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~-------~~-----------~---------   95 (456)
                      .|.+|+||+.+++.+.-.+-.....|+||+||||||||+++++++.-+-.       ..           .         
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIR   84 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSCCCEEE
T ss_pred             ChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCccccccchhhccccCccc
Confidence            69999999999887765554222247999999999999999999985510       00           0         


Q ss_pred             -ccceEEeeCCCCcChHHHHHH--HHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhcc-------
Q psy12150         96 -RERILELNASDDRGIQVIRDK--VKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKET-------  165 (456)
Q Consensus        96 -~~~~~e~n~~~~~~~~~i~~~--l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~-------  165 (456)
                       ...+.....  ......+...  +............+..-..++..|+++||++.+.++.++.|++.|++..       
T Consensus        85 ~~~~~~~~~~--~~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~~~~~~~aLl~~me~~~v~i~r~g  162 (333)
T d1g8pa_          85 KPTPVVDLPL--GVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDG  162 (333)
T ss_dssp             ECCCEEEECT--TCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTT
T ss_pred             ccCceeeccC--CCCcccccCcchhhhccccCcceeeccccccccccEeecccHHHHHHHHHHHHhhhhcCCeEEecccC
Confidence             001111111  1111111100  0000000000000000000245699999999999999999999998642       


Q ss_pred             ------CcceEEEEecC-cccccccccCCce-EEEecCCCH-HHHHHHHHHH----------------------------
Q psy12150        166 ------KSTRFCLICNY-VSCIIQPLTSRCS-KFRFKPLAE-NTMLTRLQYI----------------------------  208 (456)
Q Consensus       166 ------~~~~lIl~~~~-~~kl~~~l~~r~~-~i~f~~~~~-~el~~~l~~~----------------------------  208 (456)
                            ..+.++.+.|. ..++.+++.+|+. .+.+..+.. .+....+...                            
T Consensus       163 ~~~~~p~~f~liaa~Np~~~~l~~~llDRf~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (333)
T d1g8pa_         163 LSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQILEA  242 (333)
T ss_dssp             CCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ceecCCCCEEEEEecCccccccccchhhhhcceeeccCcchhhHHHHHHHhhhhcccChHHHHHHHHHHHHHHHHHHHHH
Confidence                  23455555554 3567888999986 566665542 2211111110                            


Q ss_pred             -HHHcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHHHh---hCCCCCCHHHHHHHh
Q psy12150        209 -CEQESVMCDFKALETLVETS---GG-DMRRAITCLQSCARL---KGGEGIVNEDVLEVT  260 (456)
Q Consensus       209 -~~~~~~~i~~~~l~~L~~~s---~g-dlr~~~~~L~~~~~~---~~~~~It~~~v~~~~  260 (456)
                       ..-..+.++++....+....   +. ++|.....++-+...   .+...|+.+||.+++
T Consensus       243 ~~~l~~v~~~~~~~~~~~~~~~~~~~~S~R~~~~llrvArtiA~L~gr~~V~~~di~~a~  302 (333)
T d1g8pa_         243 RERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARALAALEGATAVGRDHLKRVA  302 (333)
T ss_dssp             HHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHH
T ss_pred             hhcccceecCHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence             01123556666666655432   33 678777777554333   378899999998854

>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=99.34  E-value=7.3e-12  Score=118.69  Aligned_cols=166  Identities=17%  Similarity=0.223  Sum_probs=116.5

Q ss_pred             cccccHHHHHHHHHHHh--------cCCCC-eEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcCh------
Q psy12150         46 DVIEQQEVVSVLKKCLS--------GADLP-HFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGI------  110 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~--------~~~~~-~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~------  110 (456)
                      .++||+++++.+...+.        ..++. .++|.||+|+|||.+|+.+++.+..     +++.+|++.....      
T Consensus        23 ~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~-----~~i~~d~s~~~~~~~~~~l   97 (315)
T d1r6bx3          23 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI-----ELLRFDMSEYMERHTVSRL   97 (315)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTC-----EEEEEEGGGCSSSSCCSSS
T ss_pred             eecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccC-----CeeEeccccccchhhhhhh
Confidence            57999999998877763        12233 3999999999999999999998754     4555665542211      


Q ss_pred             --------H-HHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhc-----------cCcceE
Q psy12150        111 --------Q-VIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKE-----------TKSTRF  170 (456)
Q Consensus       111 --------~-~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~-----------~~~~~l  170 (456)
                              + .....+......            .++.++++||+|...++.++.|++.+++.           ..++++
T Consensus        98 ~g~~~gy~g~~~~~~l~~~~~~------------~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~ii  165 (315)
T d1r6bx3          98 IGAPPGYVGFDQGGLLTDAVIK------------HPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVL  165 (315)
T ss_dssp             CCCCSCSHHHHHTTHHHHHHHH------------CSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEE
T ss_pred             cccCCCccccccCChhhHHHHh------------CccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEE
Confidence                    1 011112222222            14569999999999999999999999853           245778


Q ss_pred             EEEecCc-------------------------ccccccccCCce-EEEecCCCHHHHHHHHHHHHHH-------cC--CC
Q psy12150        171 CLICNYV-------------------------SCIIQPLTSRCS-KFRFKPLAENTMLTRLQYICEQ-------ES--VM  215 (456)
Q Consensus       171 Il~~~~~-------------------------~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~~~~~-------~~--~~  215 (456)
                      |+++|--                         ..+.+.+.+|+. .+.|.+++.+++.+++...+.+       .+  +.
T Consensus       166 I~Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~ii~f~~l~~~~~~~I~~~~l~~~~~~l~~~~i~l~  245 (315)
T d1r6bx3         166 VMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLE  245 (315)
T ss_dssp             EEEECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEE
T ss_pred             EeccchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhcCcchh
Confidence            8888721                         123556778876 8999999999998887655542       23  45


Q ss_pred             CCHHHHHHHHHHc
Q psy12150        216 CDFKALETLVETS  228 (456)
Q Consensus       216 i~~~~l~~L~~~s  228 (456)
                      +++++++.|++.+
T Consensus       246 ~~~~a~~~l~~~~  258 (315)
T d1r6bx3         246 VSQEARNWLAEKG  258 (315)
T ss_dssp             ECHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhC
Confidence            7899999998764

>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=99.28  E-value=3.8e-12  Score=110.57  Aligned_cols=160  Identities=18%  Similarity=0.204  Sum_probs=113.0

Q ss_pred             hhccCCCCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCc-----cccceEEeeCCC----
Q psy12150         36 VEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM-----YRERILELNASD----  106 (456)
Q Consensus        36 ~eky~P~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~-----~~~~~~e~n~~~----  106 (456)
                      .++-+...++.++|++..++++...+......|++|.||||+|||++++.+++.+..+.     ....+++++.+.    
T Consensus        13 t~~a~~g~ld~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg   92 (195)
T d1jbka_          13 TERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAG   92 (195)
T ss_dssp             HHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTT
T ss_pred             HHHHHcCCCCCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhcc
Confidence            44445567788999999999999999988777899999999999999999999875422     234567776554    


Q ss_pred             CcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCccHH--------HHHHHHHHHHhccCcceEEEEecC--
Q psy12150        107 DRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA--------AQAALRRTMEKETKSTRFCLICNY--  176 (456)
Q Consensus       107 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l~~~--------~~~~Ll~~le~~~~~~~lIl~~~~--  176 (456)
                      ....+...+.+..........        .+.-|+||||++.+...        ..+.|..+|+..  ...+|.+|+.  
T Consensus        93 ~~~rG~~E~rl~~il~e~~~~--------~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg--~l~~IgatT~ee  162 (195)
T d1jbka_          93 AKYRGEFEERLKGVLNDLAKQ--------EGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--ELHCVGATTLDE  162 (195)
T ss_dssp             TCSHHHHHHHHHHHHHHHHHS--------TTTEEEEEETGGGGTT------CCCCHHHHHHHHHTT--SCCEEEEECHHH
T ss_pred             CCccHHHHHHHHHHHHHHhcC--------CCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCC--CceEEecCCHHH
Confidence            233445555555444332111        02238999999998543        236778888864  4556666652  


Q ss_pred             cc---cccccccCCceEEEecCCCHHHHHHHH
Q psy12150        177 VS---CIIQPLTSRCSKFRFKPLAENTMLTRL  205 (456)
Q Consensus       177 ~~---kl~~~l~~r~~~i~f~~~~~~el~~~l  205 (456)
                      +.   .-.++|.+|++.+...+|+.++...+|
T Consensus       163 y~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         163 YRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            22   346789999999999999998877654

>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=99.27  E-value=1.4e-11  Score=118.74  Aligned_cols=188  Identities=18%  Similarity=0.190  Sum_probs=113.3

Q ss_pred             cccccHHHHHHHHHHHh------------------------------cCCCCeEEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         46 DVIEQQEVVSVLKKCLS------------------------------GADLPHFLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~------------------------------~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      .++||+++++.+..++.                              +..+.++||.||+|||||.+|+++++.+..   
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~~~---   94 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDI---   94 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTC---
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhccc---
Confidence            47899999887765552                              122344999999999999999999987643   


Q ss_pred             ccceEEeeCCCCcChHHH----HHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCCc--------------cHHHHHHH
Q psy12150         96 RERILELNASDDRGIQVI----RDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM--------------THAAQAAL  157 (456)
Q Consensus        96 ~~~~~e~n~~~~~~~~~i----~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~l--------------~~~~~~~L  157 (456)
                        +++.++++.....+.+    ...+..+...+.....     ..++.+|++||++..              .+..++.|
T Consensus        95 --~~ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~-----~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~l  167 (364)
T d1um8a_          95 --PIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQ-----KAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQAL  167 (364)
T ss_dssp             --CEEEEEGGGCC--------CTHHHHHHHHHTTTCHH-----HHTTSEEEEETGGGC--------------CHHHHHHH
T ss_pred             --ceeehhhhhcccchhhHhhhccchhhhhhhchhHHH-----HhhcccchhhhhhhhccccccccccccccchHHHHhh
Confidence              4555666554432222    2223333222211000     013459999999984              34578899


Q ss_pred             HHHHHhcc-------------CcceEEEEecC------------------------------------------------
Q psy12150        158 RRTMEKET-------------KSTRFCLICNY------------------------------------------------  176 (456)
Q Consensus       158 l~~le~~~-------------~~~~lIl~~~~------------------------------------------------  176 (456)
                      ++.++...             .+.+++.++|-                                                
T Consensus       168 Lqild~~~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  247 (364)
T d1um8a_         168 LKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDL  247 (364)
T ss_dssp             HHHHHCCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHH
T ss_pred             hhhhcCceeccCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHH
Confidence            99998421             11122211110                                                


Q ss_pred             -cccccccccCCce-EEEecCCCHHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHc---CCCHHHHHHH
Q psy12150        177 -VSCIIQPLTSRCS-KFRFKPLAENTMLTRLQY-----------ICEQESV--MCDFKALETLVETS---GGDMRRAITC  238 (456)
Q Consensus       177 -~~kl~~~l~~r~~-~i~f~~~~~~el~~~l~~-----------~~~~~~~--~i~~~~l~~L~~~s---~gdlr~~~~~  238 (456)
                       ...+.|.|..|.. ++.|.+++.+++.+++..           .++.+|+  .+++++++.|++.+   .--.|.+.+.
T Consensus       248 ~~~~f~PEf~gRi~~iv~f~~L~~~~l~~Il~~~~~~l~kq~~~~l~~~gi~L~~td~a~~~la~~g~d~~~GAR~L~ri  327 (364)
T d1um8a_         248 VTYGLIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAI  327 (364)
T ss_dssp             HHTTCCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHH
T ss_pred             hhhhhHHHHHHHhcchhhHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhccCCCCCchHHHHH
Confidence             0013445667765 789999999999998852           2334565  46899999999864   2345555566


Q ss_pred             HHHHH
Q psy12150        239 LQSCA  243 (456)
Q Consensus       239 L~~~~  243 (456)
                      +++..
T Consensus       328 ie~~l  332 (364)
T d1um8a_         328 IEDFC  332 (364)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65543

>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=99.14  E-value=6.6e-13  Score=127.94  Aligned_cols=160  Identities=15%  Similarity=0.032  Sum_probs=88.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADS  148 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~  148 (456)
                      ++||||||||||+++.++++.+++     .++++|+++.++...+..........................++++||+|.
T Consensus       157 ~~~~g~~~~gk~~~~~~~~~~~~~-----~~i~in~s~~rs~~~l~~~~~~~~~l~d~~~~~~~~~~~~~~~~~~DeiD~  231 (362)
T d1svma_         157 WLFKGPIDSGKTTLAAALLELCGG-----KALNVNLPLDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINNLDN  231 (362)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCC-----EEECCSSCTTTHHHHHGGGTTCSCEEETTCCCSTTTTTTCCCCSHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCC-----CEEEEECcchhhHHHHHhHHHHHHHHHHHHHHhhhhccCCCCeEEEehHhh
Confidence            999999999999999999999865     688888887554332211111000000000000000000112455555554


Q ss_pred             ccHHHHHHHHHHHHhcc--------------CcceEEEEecCcc-cccccccCCceEEEecCCCHHHHHHHHHHHHHHcC
Q psy12150        149 MTHAAQAALRRTMEKET--------------KSTRFCLICNYVS-CIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQES  213 (456)
Q Consensus       149 l~~~~~~~Ll~~le~~~--------------~~~~lIl~~~~~~-kl~~~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~  213 (456)
                      |.        ..++...              ....+|++||+.. ....+++.++..+.+.++.......++..+++++.
T Consensus       232 l~--------~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~~~~~~~r~~Rf~~~i~~~~~~~~~~~~~~l~~i~~~~~  303 (362)
T d1svma_         232 LR--------DYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNEYSVPKTLQARFVKQIDFRPKDYLKHCLERSEFLLEKRI  303 (362)
T ss_dssp             TH--------HHHHCSSCEEECCSSSCCEEECCCCEEEEECSCCCCHHHHTTEEEEEECCCCHHHHHHHHTCTHHHHTTC
T ss_pred             cc--------cccCCcchhhhhhhhhchhhhccCCceeecccccccccccccCceEEeecCCCcHHHHHHHHHHHhcccC
Confidence            43        2222110              1123677888542 22222233333444444445555677888888888


Q ss_pred             CCCCHHHHHHH-HHHcCCCHHHHHHHHHH
Q psy12150        214 VMCDFKALETL-VETSGGDMRRAITCLQS  241 (456)
Q Consensus       214 ~~i~~~~l~~L-~~~s~gdlr~~~~~L~~  241 (456)
                      ...+.+.+..+ ...+++|++.+++.+..
T Consensus       304 l~~~~~~L~~li~~~s~~D~~~~i~~~~~  332 (362)
T d1svma_         304 IQSGIALLLMLIWYRPVAEFAQSIQSRIV  332 (362)
T ss_dssp             TTCHHHHHHHHHHHSCGGGSCGGGHHHHH
T ss_pred             CCCCHHHHHHHccCCCHHHHHHHHHHHHH
Confidence            88887777554 45667788888877654

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.04  E-value=3.8e-09  Score=97.03  Aligned_cols=191  Identities=17%  Similarity=0.158  Sum_probs=109.7

Q ss_pred             CCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC---CCcChHHHHHHHH
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS---DDRGIQVIRDKVK  118 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~---~~~~~~~i~~~l~  118 (456)
                      ..-++++|+++.++.+.+.    ..++++|+||+|+|||++++.+++.+.....   ++.+...   .......+...+.
T Consensus         9 ~~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~---~i~~~~~~~~~~~~~~~~~~~~~   81 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELNLPYI---YLDLRKFEERNYISYKDFLLELQ   81 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHTCCEE---EEEGGGGTTCSCCCHHHHHHHHH
T ss_pred             CChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCCCCeE---EEEeccccccccccHHHHHHHHH
Confidence            3568999999999888764    3345999999999999999999998754321   1111111   1111222222211


Q ss_pred             HHHHhh-----------ccCC-------------CCCC------------CCCCCcEEEEEcCCCCccHHH----HHHHH
Q psy12150        119 TFAQQT-----------ASGF-------------NQDG------------KPCPPFKIVILDEADSMTHAA----QAALR  158 (456)
Q Consensus       119 ~~~~~~-----------~~~~-------------~~~~------------~~~~~~~iviIDE~d~l~~~~----~~~Ll  158 (456)
                      ......           ....             ....            .......++++||++.+....    ...+.
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~l~  161 (283)
T d2fnaa2          82 KEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALA  161 (283)
T ss_dssp             HHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHH
T ss_pred             HHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHHHHHH
Confidence            111000           0000             0000            001244589999998875432    22333


Q ss_pred             HHHHhccCcceEEEEecCcc---cc------ccc-ccCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Q psy12150        159 RTMEKETKSTRFCLICNYVS---CI------IQP-LTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETS  228 (456)
Q Consensus       159 ~~le~~~~~~~lIl~~~~~~---kl------~~~-l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s  228 (456)
                      ...... ....+++++....   .+      ... ...+...+.+.+++.++..+++...+...+++.+  .++.+++.+
T Consensus       162 ~~~~~~-~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~--~~~~i~~~~  238 (283)
T d2fnaa2         162 YAYDNL-KRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFK--DYEVVYEKI  238 (283)
T ss_dssp             HHHHHC-TTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCC--CHHHHHHHH
T ss_pred             HHHHhh-hhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHH--HHHHHHHHh
Confidence            333333 3344555543211   11      111 2234567899999999999999999988776554  468999999


Q ss_pred             CCCHHHHHHHHHHH
Q psy12150        229 GGDMRRAITCLQSC  242 (456)
Q Consensus       229 ~gdlr~~~~~L~~~  242 (456)
                      +|.+..+......+
T Consensus       239 ~G~P~~L~~~~~~~  252 (283)
T d2fnaa2         239 GGIPGWLTYFGFIY  252 (283)
T ss_dssp             CSCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            99997554443333

>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=98.80  E-value=3.7e-09  Score=98.82  Aligned_cols=123  Identities=15%  Similarity=0.091  Sum_probs=69.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcC--hHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRG--IQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEA  146 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~--~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~  146 (456)
                      +|||||||||||.+|++++.++....   +++.++.++..+  .++....++.....+..       ++    ||||||+
T Consensus       126 ~l~~G~pG~GKT~la~ala~~~~~~~---~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~-------~~----ilf~DEi  191 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEALGGKD---KYATVRFGEPLSGYNTDFNVFVDDIARAMLQ-------HR----VIVIDSL  191 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHHHHTTS---CCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH-------CS----EEEEECC
T ss_pred             EEEECCCCccHHHHHHHHHHHhcCCC---CeEEEEhhHhhhcccchHHHHHHHHHHHHhh-------cc----EEEeehh
Confidence            67799999999999999999986432   456667666322  22233334433333221       12    9999999


Q ss_pred             CCccHHH------------HHHHHHHHHh--ccCcceEEEEecCccccccccc------CCc-eEEEecCCCHHHHHHHH
Q psy12150        147 DSMTHAA------------QAALRRTMEK--ETKSTRFCLICNYVSCIIQPLT------SRC-SKFRFKPLAENTMLTRL  205 (456)
Q Consensus       147 d~l~~~~------------~~~Ll~~le~--~~~~~~lIl~~~~~~kl~~~l~------~r~-~~i~f~~~~~~el~~~l  205 (456)
                      |.+.+..            .+.|+.-|+.  ....+++|.++| +..+.+++.      .|+ ..+.+.+|+.+....+|
T Consensus       192 d~~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~~~~v~viaatN-~~~~~~~i~~~~~r~~Rf~~~v~v~~pd~~~r~~il  270 (321)
T d1w44a_         192 KNVIGAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVIASLN-PTSNDDKIVELVKEASRSNSTSLVISTDVDGEWQVL  270 (321)
T ss_dssp             TTTC-----------CCHHHHHHHHHHHHHHHHHTCEEEEECC-CCCCCHHHHHHHHHHHHHSCSEEEEECSSTTEEEEE
T ss_pred             hhhccccccCCCCCcchhhhhhhhhhccccccCCCeEEEEeCC-CcccccchhhhhhccCcccceeecCCCChHHHHHHH
Confidence            9996532            2344444432  223466666666 443333332      222 25666666665544444


Q ss_pred             H
Q psy12150        206 Q  206 (456)
Q Consensus       206 ~  206 (456)
                      .
T Consensus       271 ~  271 (321)
T d1w44a_         271 T  271 (321)
T ss_dssp             E
T ss_pred             H
Confidence            3

>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=98.66  E-value=4.7e-07  Score=83.33  Aligned_cols=181  Identities=14%  Similarity=0.087  Sum_probs=105.2

Q ss_pred             cccccHHHHHHHHHHHhcC-CC-C-eEEEECCCCCcHHHHHHHHHHHhcC--CccccceEEeeCCCCcChHHHHHHHHHH
Q psy12150         46 DVIEQQEVVSVLKKCLSGA-DL-P-HFLFYGPPGTGKTSTMIAACHQLFG--DMYRERILELNASDDRGIQVIRDKVKTF  120 (456)
Q Consensus        46 ~ivg~~~~~~~l~~~l~~~-~~-~-~~Ll~G~~G~GKT~~a~~l~~~l~~--~~~~~~~~e~n~~~~~~~~~i~~~l~~~  120 (456)
                      +++|++..++.+.+++... .. . .+.|||+.|+|||++|+.+++....  ......++-++.+.......+...+...
T Consensus        21 ~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~  100 (277)
T d2a5yb3          21 TCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDIL  100 (277)
T ss_dssp             CSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHH
T ss_pred             ceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHHH
Confidence            4679999999999988542 22 2 2889999999999999999876321  1111122333444333444444444443


Q ss_pred             HHhhccCCC---C-CCCC--------------CCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecCcccccc
Q psy12150        121 AQQTASGFN---Q-DGKP--------------CPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQ  182 (456)
Q Consensus       121 ~~~~~~~~~---~-~~~~--------------~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~kl~~  182 (456)
                      .........   + ....              ...+-++|+|++...  ...    +++..  ....+|+++.+ ..+..
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~--~~~----~~~~~--~~srilvTTR~-~~v~~  171 (277)
T d2a5yb3         101 LMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE--ETI----RWAQE--LRLRCLVTTRD-VEISN  171 (277)
T ss_dssp             HHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCH--HHH----HHHHH--TTCEEEEEESB-GGGGG
T ss_pred             HHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHH--hhh----hhhcc--cCceEEEEeeh-HHHHH
Confidence            322111000   0 0000              023458999999752  222    22322  23455555543 34545


Q ss_pred             cccCCceEEEecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHH
Q psy12150        183 PLTSRCSKFRFKPLAENTMLTRLQYICEQESV-MCDFKALETLVETSGGDMRRA  235 (456)
Q Consensus       183 ~l~~r~~~i~f~~~~~~el~~~l~~~~~~~~~-~i~~~~l~~L~~~s~gdlr~~  235 (456)
                      .+...+..+++.+++.++..+.+...+..... .-.++..+.|++.|+|.+-.+
T Consensus       172 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl  225 (277)
T d2a5yb3         172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATL  225 (277)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHH
T ss_pred             hcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHH
Confidence            55666678999999999999988765432211 113556678999999988544

>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=98.55  E-value=2.2e-06  Score=83.73  Aligned_cols=124  Identities=22%  Similarity=0.225  Sum_probs=78.1

Q ss_pred             EEEEcCCCCcc------------HHHHHHHHHHHHhcc----------CcceEEEEec----CcccccccccCCce-EEE
Q psy12150        140 IVILDEADSMT------------HAAQAALRRTMEKET----------KSTRFCLICN----YVSCIIQPLTSRCS-KFR  192 (456)
Q Consensus       140 iviIDE~d~l~------------~~~~~~Ll~~le~~~----------~~~~lIl~~~----~~~kl~~~l~~r~~-~i~  192 (456)
                      ++++||++...            ...+..++..++...          ....++..+.    .+..+.|.|..|+. ++.
T Consensus       252 ~~~~dei~k~~~~~~~~g~d~~~eg~~~~ll~~~e~~~v~~~~~~~~~~~~l~i~~~~~~~~~~~gliPEliGRlPi~v~  331 (443)
T d1g41a_         252 IVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIRVE  331 (443)
T ss_dssp             EEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSCCGGGSCHHHHTTCCEEEE
T ss_pred             ccccchhhhhhhcccCCCCCcccchhhhhhhhhccccccccccccccccchhhccccchhhcccccchhhhccceEEEEE
Confidence            78888887653            123556666665321          1222332222    23457888999976 899


Q ss_pred             ecCCCHHHHHHHHHH-----------HHHHcCCC--CCHHHHHHHHHHcC--------CCHHHHHHHHHHHHHhh-----
Q psy12150        193 FKPLAENTMLTRLQY-----------ICEQESVM--CDFKALETLVETSG--------GDMRRAITCLQSCARLK-----  246 (456)
Q Consensus       193 f~~~~~~el~~~l~~-----------~~~~~~~~--i~~~~l~~L~~~s~--------gdlr~~~~~L~~~~~~~-----  246 (456)
                      |.+++.+++.++|..           .++.+|++  |++++++.+++.+-        -..|.+...++++..-.     
T Consensus       332 L~~L~~~dL~rILtEPknsLikQy~~lf~~~gv~L~ft~~al~~iA~~A~~~n~~~~~~GAR~Lr~i~E~~l~~~~f~~p  411 (443)
T d1g41a_         332 LTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFSAS  411 (443)
T ss_dssp             CCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHHHHHHHHHHGG
T ss_pred             ccCccHHHHHHHHHhhhhhHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhhhhcccCCchHHHHHHHHHHHHHhccCC
Confidence            999999999998842           23346665  58999999987652        24677777777764322     


Q ss_pred             --CCC--CCCHHHHHHHhCCC
Q psy12150        247 --GGE--GIVNEDVLEVTGVI  263 (456)
Q Consensus       247 --~~~--~It~~~v~~~~~~~  263 (456)
                        ..+  .|+.+.|++.+...
T Consensus       412 ~~~~~~v~Id~~~v~~~l~~~  432 (443)
T d1g41a_         412 DMNGQTVNIDAAYVADALGEV  432 (443)
T ss_dssp             GCTTCEEEECHHHHHHHHTTT
T ss_pred             CCCCCEEEECHHHHHhhhhch
Confidence              112  46677777666544

>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=98.15  E-value=2.3e-06  Score=72.56  Aligned_cols=25  Identities=28%  Similarity=0.457  Sum_probs=22.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +++|.||+|+||||+++.++..+..
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            3799999999999999999998753

>d1jqlb_ c.37.1.20 (B:) delta 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 subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.01  E-value=6.5e-06  Score=67.23  Aligned_cols=125  Identities=10%  Similarity=-0.016  Sum_probs=83.2

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCC
Q psy12150         56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPC  135 (456)
Q Consensus        56 ~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~  135 (456)
                      +|.+.++++-.+-|+|||++...+..+...+.+.+..+......... .....   ...+.+..+...+.+         
T Consensus         8 ~L~~~l~k~l~~vyll~G~E~~L~~~~~~~i~~~~~~~~~~~~~~~~-~~~~~---~~~~l~~~~~t~slF---------   74 (140)
T d1jqlb_           8 QLRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFS-IDPNT---DWNAIFSLCQAMSLF---------   74 (140)
T ss_dssp             GHHHHHHHCCCSEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEECCC-CSTTC---CHHHHHHHHHCCCTT---------
T ss_pred             HHHHHHhcCCCcEEEEEcChHHHHHHHHHHHHHHHHhCCcceeeeec-ccccC---CHHHHHHHHcCCCcc---------
Confidence            46667776633349999999999999888888876544332111111 11112   233444444444444         


Q ss_pred             CCcEEEEEcCCCCcc-HHHHHHHHHHHHhccCcceEEEEecCc------ccccccccCCceEEEe
Q psy12150        136 PPFKIVILDEADSMT-HAAQAALRRTMEKETKSTRFCLICNYV------SCIIQPLTSRCSKFRF  193 (456)
Q Consensus       136 ~~~~iviIDE~d~l~-~~~~~~Ll~~le~~~~~~~lIl~~~~~------~kl~~~l~~r~~~i~f  193 (456)
                      +++++|+|++.+... ....+.|.+|++++++.+++|+.++..      .+..+.+.+++.+|.+
T Consensus        75 ~~krli~i~~~~~~~~k~~~~~L~~~~~~~~~~~~lii~~~~~~k~~~~~k~~K~l~k~g~vI~C  139 (140)
T d1jqlb_          75 ASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTC  139 (140)
T ss_dssp             CCCEEEEEECCTTCSCTTHHHHHHHHHHHCCSSCCEEEECSSCCTTGGGSHHHHHHGGGCEEEEC
T ss_pred             cCcEEEEEEcCCCCCcHHHHHHHHHHHhCCCCCEEEEEEcCCCCchhhhhHHHHHHHhCCeEEeC
Confidence            388999999987655 456678999999999999999887643      3456777788777765

>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=98.01  E-value=6.4e-06  Score=70.48  Aligned_cols=117  Identities=24%  Similarity=0.360  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHhcCCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCC
Q psy12150         52 EVVSVLKKCLSGADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQ  130 (456)
Q Consensus        52 ~~~~~l~~~l~~~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~  130 (456)
                      .-+..++.++++..-.+ ++|+|||+||||+++.++++.+.+.     ++.++-+.. .          |.-.       
T Consensus        38 ~Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~-----vis~~N~~s-~----------F~Lq-------   94 (205)
T d1tuea_          38 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQGA-----VISFVNSTS-H----------FWLE-------   94 (205)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTCE-----ECCCCCSSS-C----------GGGG-------
T ss_pred             HHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhCCE-----EEeccCCCC-C----------cccc-------
Confidence            33567788886544344 9999999999999999999987542     222211110 0          0000       


Q ss_pred             CCCCCCCcEEEEEcCCCCccHHHHHH-HHHHHHhcc-------------CcceEEEEecCc---ccccccccCCceEEEe
Q psy12150        131 DGKPCPPFKIVILDEADSMTHAAQAA-LRRTMEKET-------------KSTRFCLICNYV---SCIIQPLTSRCSKFRF  193 (456)
Q Consensus       131 ~~~~~~~~~iviIDE~d~l~~~~~~~-Ll~~le~~~-------------~~~~lIl~~~~~---~kl~~~l~~r~~~i~f  193 (456)
                         +..+.+++++||+........+. +..++...+             ..+.+++++|..   ..-.+.|.+|...++|
T Consensus        95 ---~l~~~kv~l~dD~t~~~~~~~d~~lK~ll~G~~vsvd~KhK~~vqi~~pPliITsN~~~~~~d~~~~L~sRi~~f~F  171 (205)
T d1tuea_          95 ---PLTDTKVAMLDDATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLESRITVFEF  171 (205)
T ss_dssp             ---GGTTCSSEEEEEECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHTSCEEEEC
T ss_pred             ---cccCCeEEEEeccccchHHHHHHHHHhccCCCeeeeecccCCcccccCCCEEEEcCCCCCccccchhhhheEEEEEC
Confidence               01255699999987766555554 344443210             113366677743   3345668999999999


Q ss_pred             c
Q psy12150        194 K  194 (456)
Q Consensus       194 ~  194 (456)
                      +
T Consensus       172 ~  172 (205)
T d1tuea_         172 P  172 (205)
T ss_dssp             C
T ss_pred             C
Confidence            7

>d1jr3d1 a.80.1.1 (D:212-338) delta subunit {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: delta subunit
species: Escherichia coli [TaxId: 562]

Probab=97.94  E-value=5.9e-06  Score=66.16  Aligned_cols=39  Identities=18%  Similarity=0.220  Sum_probs=33.3

Q ss_pred             CCCHHHHHHHHHHHHHHHhhhhcCC--ChhHHHHHHHHHHH
Q psy12150        411 SLSDKQKALILEKLAECNARLQDGA--SEYIQILDLGSIVI  449 (456)
Q Consensus       411 ~~~~~~~~~~~~~l~~~~~~l~~g~--~~~~ql~~l~~~~~  449 (456)
                      .++......++..++++|..++.|.  +....+..++..+|
T Consensus        81 ~~s~~~l~~~l~~l~~~D~~~K~~~~~~~~~~le~l~l~lc  121 (127)
T d1jr3d1          81 RLSQTQLRQAVQLLTRTELTLKQDYGQSVWAELEGLSLLLC  121 (127)
T ss_dssp             HSCHHHHHHHHHHHHHHHHHHHHSSCSCHHHHHHHHHHHTT
T ss_pred             hCCHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Confidence            6899999999999999999999764  44578888888776

>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=97.93  E-value=4.4e-06  Score=75.87  Aligned_cols=58  Identities=26%  Similarity=0.445  Sum_probs=38.3

Q ss_pred             cccccccHHHHHHHHHHHhc---CCCCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         44 IDDVIEQQEVVSVLKKCLSG---ADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~~---~~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      |.+.-+++.....+.....+   ...|. +||+||||||||++|+++++++..     +++.+|+++
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~~~-----~~~~i~~d~   67 (273)
T d1gvnb_           6 FTDKQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQG-----NVIVIDNDT   67 (273)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHTTT-----CCEEECTHH
T ss_pred             cChHHHHHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHhhc-----ceEEEecHH
Confidence            34444444444555444432   23334 999999999999999999999754     456666543

>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=97.75  E-value=3e-05  Score=67.38  Aligned_cols=31  Identities=29%  Similarity=0.342  Sum_probs=24.8

Q ss_pred             CCCe-EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         65 DLPH-FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        65 ~~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      ..|+ ++|.||+|+||||++-.++..+.....
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~   38 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQQGK   38 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHTTTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            3455 889999999999999999988765433

>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=97.64  E-value=3.3e-05  Score=67.17  Aligned_cols=145  Identities=10%  Similarity=0.090  Sum_probs=69.2

Q ss_pred             CCe-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccC---CCCCCCC-------
Q psy12150         66 LPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASG---FNQDGKP-------  134 (456)
Q Consensus        66 ~~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~---~~~~~~~-------  134 (456)
                      .|+ ++|.||+|+||||++-.++..+.....+..++..|.......    +.+..+.......   ......+       
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~----eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a   86 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAAL----EQLQQLGQQIGVPVYGEPGEKDVVGIAKRG   86 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHH----HHHHHHHHHHTCCEECCTTCCCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchh----HHHHHhccccCcceeecccchhhhHHHHHH
Confidence            345 888999999999999999887754434333444333331122    2223333221111   0000000       


Q ss_pred             -----CCCcEEEEEcCCCCccHH----HHHHHHHHHHhc-cCcceEEEEecCcccccccccCC-----ceEEEecCCCHH
Q psy12150        135 -----CPPFKIVILDEADSMTHA----AQAALRRTMEKE-TKSTRFCLICNYVSCIIQPLTSR-----CSKFRFKPLAEN  199 (456)
Q Consensus       135 -----~~~~~iviIDE~d~l~~~----~~~~Ll~~le~~-~~~~~lIl~~~~~~kl~~~l~~r-----~~~i~f~~~~~~  199 (456)
                           ..++.+|+||=+.....+    ..+.+.++.+.. +..+.+|+.++...+....+..+     ...+-|.++++.
T Consensus        87 ~~~~~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lI~TKlDet  166 (211)
T d1j8yf2          87 VEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGT  166 (211)
T ss_dssp             HHHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHHCTTEEEEEECTTSC
T ss_pred             HHHhhccCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhcccCcceEEEecccCC
Confidence                 135579999998865322    223444444433 23455666555433222222222     124667777776


Q ss_pred             HHHHHHHHHHHHcCC
Q psy12150        200 TMLTRLQYICEQESV  214 (456)
Q Consensus       200 el~~~l~~~~~~~~~  214 (456)
                      ...--+-..+...+.
T Consensus       167 ~~~G~~l~~~~~~~l  181 (211)
T d1j8yf2         167 AKGGGALSAVAATGA  181 (211)
T ss_dssp             SCHHHHHHHHHTTTC
T ss_pred             CcccHHHHHHHHHCc
Confidence            554444444444443

>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=97.59  E-value=0.00022  Score=58.05  Aligned_cols=22  Identities=27%  Similarity=0.332  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|+|+||+||||+++.+.+..
T Consensus         5 Iii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7899999999999999987764

>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=97.56  E-value=0.00026  Score=66.74  Aligned_cols=118  Identities=19%  Similarity=0.181  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcC--CccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCC
Q psy12150         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG--DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFN  129 (456)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~--~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~  129 (456)
                      .....+...+.+   +..+|+||||||||+++..+...+..  ......+. +-+........+.+.+............
T Consensus       152 ~Q~~A~~~al~~---~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~-l~ApTgkAA~~L~e~~~~~~~~~~~~~~  227 (359)
T d1w36d1         152 WQKVAAAVALTR---RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIR-LAAPTGKAAARLTESLGKALRQLPLTDE  227 (359)
T ss_dssp             HHHHHHHHHHTB---SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEE-EEBSSHHHHHHHHHHHTHHHHHSSCCSC
T ss_pred             HHHHHHHHHHcC---CeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEE-EecCcHHHHHHHHHHHHHHHhhcCchhh
Confidence            344445555542   24899999999999998776555431  11111222 2232222233333333222111110000


Q ss_pred             C--------------------------CCCCCCCcEEEEEcCCCCccHHHHHHHHHHHHhccCcceEEEEecC
Q psy12150        130 Q--------------------------DGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNY  176 (456)
Q Consensus       130 ~--------------------------~~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  176 (456)
                      .                          .....-+..+|||||+..+.......++..   .+....+|++++.
T Consensus       228 ~~~~~~~~~~t~~~ll~~~~~~~~~~~~~~~~l~~d~lIIDEaSmv~~~l~~~ll~~---~~~~~~lILvGD~  297 (359)
T d1w36d1         228 QKKRIPEDASTLHRLLGAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLPMMSRLIDA---LPDHARVIFLGDR  297 (359)
T ss_dssp             CCCSCSCCCBTTTSCC-----------CTTSCCSCSEEEECSGGGCBHHHHHHHHHT---CCTTCEEEEEECT
T ss_pred             hhhhhhhhhhHHHHHHhhhhcchHHHHhhhcccccceeeehhhhccCHHHHHHHHHH---hcCCCEEEEECCh
Confidence            0                          000002456999999999987665555544   4556788888764

>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=97.47  E-value=0.00037  Score=62.75  Aligned_cols=125  Identities=16%  Similarity=0.197  Sum_probs=74.4

Q ss_pred             HHHHHHHHhcCCC-Ce-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCC
Q psy12150         54 VSVLKKCLSGADL-PH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQD  131 (456)
Q Consensus        54 ~~~l~~~l~~~~~-~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~  131 (456)
                      ...+..++.++.. .+ ++|+||+++|||+++..+.+.++.      +..++.+...           +. ..       
T Consensus        90 ~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~------~~~~~~~~~~-----------f~-l~-------  144 (267)
T d1u0ja_          90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVPF------YGCVNWTNEN-----------FP-FN-------  144 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSSC------EEECCTTCSS-----------CT-TG-------
T ss_pred             HHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHhcc------hhhccccCCC-----------cc-cc-------
Confidence            3556666754433 33 999999999999999999998632      2222222210           00 00       


Q ss_pred             CCCCCCcEEEEEcCCCCccHHHHHHHHHHHHh--------------ccCcceEEEEecCcccc----------cccccCC
Q psy12150        132 GKPCPPFKIVILDEADSMTHAAQAALRRTMEK--------------ETKSTRFCLICNYVSCI----------IQPLTSR  187 (456)
Q Consensus       132 ~~~~~~~~iviIDE~d~l~~~~~~~Ll~~le~--------------~~~~~~lIl~~~~~~kl----------~~~l~~r  187 (456)
                        +..+++++++||+..-. ...+.+..++..              ..+.+++|+++|+....          .++|.+|
T Consensus       145 --~l~~k~~~~~~e~~~~~-~~~~~~K~l~gGd~i~v~~K~k~~~~~~~~p~li~s~n~i~~~~~~~~~~~~~~~~l~~R  221 (267)
T d1u0ja_         145 --DCVDKMVIWWEEGKMTA-KVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQDR  221 (267)
T ss_dssp             --GGSSCSEEEECSCCEET-TTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHTT
T ss_pred             --ccCCCEEEEEeCCCccc-cHHHHHHHhcCCCceEeecccCCCcEeeCCeEEEEeCCCcccccCCCccccccchHhhhh
Confidence              01256799999986533 334445444431              12456677777765432          3568999


Q ss_pred             ceEEEecC--------CCHHHHHHHHH
Q psy12150        188 CSKFRFKP--------LAENTMLTRLQ  206 (456)
Q Consensus       188 ~~~i~f~~--------~~~~el~~~l~  206 (456)
                      ...+.|..        ++.+++..++.
T Consensus       222 ~~~~~F~~~~p~~~~~i~~~e~k~f~~  248 (267)
T d1u0ja_         222 MFKFELTRRLDHDFGKVTKQEVKDFFR  248 (267)
T ss_dssp             EEEEECCSCCCTTSCCCCHHHHHHHHH
T ss_pred             EEEEECCCcCCCccCCCCHHHHHHHHH
Confidence            98888754        34555555553

>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=97.44  E-value=0.00026  Score=61.40  Aligned_cols=39  Identities=18%  Similarity=0.235  Sum_probs=28.2

Q ss_pred             Ce-EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         67 PH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        67 ~~-~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      |+ ++|.||+|+||||++-.++..+.....+.-++..|..
T Consensus        11 p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~   50 (213)
T d1vmaa2          11 PFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTF   50 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeeccc
Confidence            44 8999999999999999998877544444444444443

>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=97.44  E-value=0.0001  Score=63.81  Aligned_cols=27  Identities=26%  Similarity=0.188  Sum_probs=22.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      ++|.||+|+||||++-.++..+.....
T Consensus         9 i~lvGptGvGKTTTiaKLA~~~~~~g~   35 (207)
T d1okkd2           9 VLVVGVNGVGKTTTIAKLGRYYQNLGK   35 (207)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            899999999999999999887765433

>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=97.43  E-value=0.00019  Score=60.38  Aligned_cols=75  Identities=16%  Similarity=0.156  Sum_probs=44.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhccCCCCCCCCCCCcEEEEEcCCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADS  148 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~iviIDE~d~  148 (456)
                      +++.|+||+||||+++.++...       .+..++..+......+...+......              .+.||+|... 
T Consensus        17 iil~G~pGsGKST~a~~l~~~~-------~~~~i~~D~~~~~~~~~~~~~~~l~~--------------g~~vIiD~t~-   74 (172)
T d1yj5a2          17 VVAVGFPGAGKSTFIQEHLVSA-------GYVHVNRDTLGSWQRCVSSCQAALRQ--------------GKRVVIDNTN-   74 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHTGGG-------TCEEEEHHHHCSHHHHHHHHHHHHHT--------------TCCEEEESCC-
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-------CCEEEchHHHHHHHHHHHHHHHHHHC--------------CCCceeeCcC-
Confidence            9999999999999999887654       23344443333333333333333222              1257888765 


Q ss_pred             ccHHHHHHHHHHHHhcc
Q psy12150        149 MTHAAQAALRRTMEKET  165 (456)
Q Consensus       149 l~~~~~~~Ll~~le~~~  165 (456)
                      ........+++...+..
T Consensus        75 ~~~~~R~~~~~~a~~~~   91 (172)
T d1yj5a2          75 PDVPSRARYIQCAKDAG   91 (172)
T ss_dssp             CSHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHhcC
Confidence            44455555666555543

>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=97.36  E-value=0.00037  Score=57.63  Aligned_cols=24  Identities=33%  Similarity=0.569  Sum_probs=22.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.||||+||||+++.+++.+..
T Consensus         5 I~i~G~~GsGKTTva~~L~~~~~~   28 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAAQLDN   28 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCC
Confidence            899999999999999999998753

>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=97.28  E-value=0.00034  Score=55.70  Aligned_cols=40  Identities=18%  Similarity=0.297  Sum_probs=23.1

Q ss_pred             CCcEEEEEcCCCCccHHHHH--HHHHHHHhccCcceEEEEec
Q psy12150        136 PPFKIVILDEADSMTHAAQA--ALRRTMEKETKSTRFCLICN  175 (456)
Q Consensus       136 ~~~~iviIDE~d~l~~~~~~--~Ll~~le~~~~~~~lIl~~~  175 (456)
                      .++++||+||+|.+.+....  .+...+.......++.++++
T Consensus        97 ~~~~lvIiDEaH~~~~~~~~~~~~~~~~~~~~~~~~l~lTAT  138 (140)
T d1yksa1          97 VNWEVIIMDEAHFLDPASIAARGWAAHRARANESATILMTAT  138 (140)
T ss_dssp             CCCSEEEETTTTCCSHHHHHHHHHHHHHHHTTSCEEEEECSS
T ss_pred             cceeEEEEccccccChhhHHHHHHHHHHhhCCCCCEEEEEcC
Confidence            36679999999999765432  33333433333333444443

>d1sxje1 a.80.1.1 (E:256-354) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.26  E-value=0.0017  Score=48.26  Aligned_cols=74  Identities=15%  Similarity=0.180  Sum_probs=64.0

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHHHh
Q psy12150        379 QVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIKAN  452 (456)
Q Consensus       379 ~~~~~~~~~l~~~g~s~~di~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~~~  452 (456)
                      ......+.+|+.++.++.-|++.|...+....+.+...+.+++..-|..|+||..|...=+.|.++||.|+.++
T Consensus        25 ~~iR~~lYeLL~~cIpp~~Ilk~L~~~Ll~~~~~d~~lk~eii~~aa~yE~Rl~~GsK~IfHLEaFvAkfM~~l   98 (99)
T d1sxje1          25 IECRAVLYDLLAHCIPANIILKELTFSLLDVETLNTTNKSSIIEYSSVFDERLSLGNKAIFHLEGFIAKVMCCL   98 (99)
T ss_dssp             HHHHHHHHHHHTTTCCHHHHHHHHHHTTTTCTTSCHHHHHHHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhhc
Confidence            33444667789999999999999977775434688999999999999999999999999999999999998764

>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=97.23  E-value=8.7e-05  Score=61.80  Aligned_cols=27  Identities=33%  Similarity=0.428  Sum_probs=23.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .+.++|.||||+||||+++.+++.++.
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~~l~~   30 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELASKSGL   30 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHCC
Confidence            456899999999999999999999743

>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=97.19  E-value=0.0012  Score=55.85  Aligned_cols=26  Identities=27%  Similarity=0.286  Sum_probs=23.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDM   94 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~   94 (456)
                      ++|+|+||+||||+++.+++.+....
T Consensus        22 I~L~G~pGSGKTTiAk~La~~l~~~~   47 (195)
T d1x6va3          22 VWLTGLSGAGKTTVSMALEEYLVCHG   47 (195)
T ss_dssp             EEEESSCHHHHHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            77999999999999999999886543

>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=97.19  E-value=0.00045  Score=55.27  Aligned_cols=22  Identities=27%  Similarity=0.381  Sum_probs=17.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ..+|.+|.|+|||+.+-.++..
T Consensus        10 ~~ll~apTGsGKT~~~~~~~~~   31 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAYAA   31 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            3799999999999987555543

>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=97.14  E-value=0.0022  Score=55.13  Aligned_cols=103  Identities=17%  Similarity=0.203  Sum_probs=53.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCcChHHHHHHHHHHHHhhcc---CCCCCCCC-----------
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTAS---GFNQDGKP-----------  134 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~~~~~i~~~l~~~~~~~~~---~~~~~~~~-----------  134 (456)
                      ++|.||+|+||||++-.++..+.....  .+.-+++... ....+ +.++.+......   .......+           
T Consensus        13 i~lvGp~GvGKTTTiaKLA~~~~~~g~--kV~lit~Dt~-R~gA~-eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~   88 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLALYYKGKGR--RPLLVAADTQ-RPAAR-EQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKA   88 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHTTC--CEEEEECCSS-CHHHH-HHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC--cEEEEecccc-cchHH-HHHHHHHHhcCCccccccccchhhHHHHHHHHHH
Confidence            788999999999999999887764433  3333333322 12221 233333322111   10000000           


Q ss_pred             -CCCcEEEEEcCCCCccH--HHHHHHHHHHHhcc-CcceEEEEec
Q psy12150        135 -CPPFKIVILDEADSMTH--AAQAALRRTMEKET-KSTRFCLICN  175 (456)
Q Consensus       135 -~~~~~iviIDE~d~l~~--~~~~~Ll~~le~~~-~~~~lIl~~~  175 (456)
                       ..++++|+||=+.+...  ...+.|.++.+... ..+.+++.++
T Consensus        89 ~~~~~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~  133 (207)
T d1ls1a2          89 RLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAM  133 (207)
T ss_dssp             HHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGG
T ss_pred             hhccCcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccc
Confidence             02456999999887643  34455555544333 3444555443

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.08  E-value=0.00014  Score=59.65  Aligned_cols=25  Identities=28%  Similarity=0.412  Sum_probs=22.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +++|.||||+||||+++.+++.++.
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L~~   28 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQLNM   28 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTTC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5889999999999999999999854

>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=97.06  E-value=0.00015  Score=60.77  Aligned_cols=25  Identities=40%  Similarity=0.670  Sum_probs=22.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+++|+||||+|||++++.+++.+.
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~   26 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHH
Confidence            3689999999999999999999885

>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=97.05  E-value=0.00099  Score=58.61  Aligned_cols=37  Identities=24%  Similarity=0.295  Sum_probs=28.6

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        57 l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      |.+.+.+|-++.  .+|+|+||+|||+++..++......
T Consensus        15 LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~   53 (242)
T d1tf7a2          15 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACAN   53 (242)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence            455566555444  9999999999999999999886543

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.02  E-value=0.00015  Score=61.02  Aligned_cols=25  Identities=12%  Similarity=0.112  Sum_probs=22.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      .++|.||||+||||++++|++.++.
T Consensus         9 ~I~i~G~~GsGKTTla~~La~~~~~   33 (192)
T d1lw7a2           9 TVAILGGESSGKSVLVNKLAAVFNT   33 (192)
T ss_dssp             EEEEECCTTSHHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4999999999999999999998754

>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=97.00  E-value=0.00024  Score=58.96  Aligned_cols=26  Identities=31%  Similarity=0.648  Sum_probs=23.1

Q ss_pred             Ce-EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         67 PH-FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        67 ~~-~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++ ++|.|+||+||||+++.+++.++.
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l~~   32 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQLHA   32 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            44 899999999999999999999854

>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=96.84  E-value=0.00043  Score=57.22  Aligned_cols=35  Identities=26%  Similarity=0.332  Sum_probs=27.5

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEE
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e  101 (456)
                      |.+.|+|++|+||||+++.+++.+.....+..++.
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~   37 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIK   37 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEec
Confidence            55899999999999999999998865544433433

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.83  E-value=0.00036  Score=58.00  Aligned_cols=24  Identities=42%  Similarity=0.537  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +++|.||||+||||+++.+++.+.
T Consensus         7 ~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           7 NILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHST
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHhC
Confidence            399999999999999999999864

>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=96.79  E-value=0.0011  Score=56.91  Aligned_cols=25  Identities=24%  Similarity=0.142  Sum_probs=22.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      ++++|.||+||||+++++++.+...
T Consensus         5 i~l~GlpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1           5 IVMVGLPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhc
Confidence            8999999999999999999987643

>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=96.78  E-value=0.00035  Score=58.26  Aligned_cols=24  Identities=21%  Similarity=0.141  Sum_probs=22.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|+|+||+||||+++++++.+..
T Consensus         9 I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           9 IFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            889999999999999999999864

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.76  E-value=0.00041  Score=57.54  Aligned_cols=26  Identities=27%  Similarity=0.379  Sum_probs=23.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      |+++|.|+||+||||+++.+++.++.
T Consensus         2 p~IvliG~~G~GKSTig~~La~~l~~   27 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAKALGV   27 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHTC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhCC
Confidence            45778899999999999999999854

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.71  E-value=0.00043  Score=57.46  Aligned_cols=24  Identities=17%  Similarity=0.220  Sum_probs=22.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|+|+||+||||+++++++.+..
T Consensus         6 I~l~G~~GsGKsTva~~L~~~l~~   29 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSVLPE   29 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCC
Confidence            899999999999999999999754

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.67  E-value=0.0004  Score=59.19  Aligned_cols=24  Identities=21%  Similarity=0.371  Sum_probs=21.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      -++|.||||+||||.++.+++.++
T Consensus         8 iI~i~G~pGSGKsT~a~~La~~~g   31 (194)
T d1qf9a_           8 VVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            389999999999999999999873

>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=96.58  E-value=0.0046  Score=53.02  Aligned_cols=41  Identities=24%  Similarity=0.233  Sum_probs=30.7

Q ss_pred             cccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         48 IEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        48 vg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      --++...+.+..+++++   +.++.+|+|+|||.++-.++..+.
T Consensus        70 ~Lr~yQ~eav~~~~~~~---~~ll~~~tG~GKT~~a~~~~~~~~  110 (206)
T d2fz4a1          70 SLRDYQEKALERWLVDK---RGCIVLPTGSGKTHVAMAAINELS  110 (206)
T ss_dssp             CCCHHHHHHHHHHTTTS---EEEEEESSSTTHHHHHHHHHHHSC
T ss_pred             CcCHHHHHHHHHHHhCC---CcEEEeCCCCCceehHHhHHHHhc
Confidence            34566666777776543   467889999999999888887764

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.56  E-value=0.00052  Score=57.01  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||||+||||+++.+++.++
T Consensus         7 I~l~G~~GsGKSTia~~La~~lg   29 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANLPG   29 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTCSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            89999999999999999998764

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=96.54  E-value=0.00064  Score=57.65  Aligned_cols=26  Identities=15%  Similarity=0.193  Sum_probs=22.9

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +..++|.||||+||||.++.+++.++
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHC
Confidence            33489999999999999999999874

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.51  E-value=0.00065  Score=56.12  Aligned_cols=25  Identities=28%  Similarity=0.341  Sum_probs=22.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +++|.|+||+||||+++.+++.++.
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l~~   26 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDLDL   26 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4788899999999999999999854

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.51  E-value=0.00092  Score=55.87  Aligned_cols=28  Identities=25%  Similarity=0.329  Sum_probs=24.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYR   96 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~   96 (456)
                      ++|.|+||+||||+++.+++.+.....+
T Consensus         4 I~i~G~~GsGKsT~~~~L~~~l~~~~~~   31 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMDNLRKEGVN   31 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCC
Confidence            7999999999999999999998765443

>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=96.50  E-value=0.008  Score=53.55  Aligned_cols=36  Identities=19%  Similarity=0.262  Sum_probs=26.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      ..|+||||+|||+++..++........  .+++++...
T Consensus        57 tei~G~~gsGKTtl~l~~~~~~q~~g~--~~vyidtE~   92 (263)
T d1u94a1          57 VEIYGPESSGKTTLTLQVIAAAQREGK--TCAFIDAEH   92 (263)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEESSC
T ss_pred             EEEecCCCcHHHHHHHHHHHHHHcCCC--EEEEEcccc
Confidence            999999999999999888876643322  345555543

>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=96.47  E-value=0.0039  Score=54.87  Aligned_cols=43  Identities=28%  Similarity=0.372  Sum_probs=28.0

Q ss_pred             CCcEEEEEcCCC-CccHHHHHHHHHHHHhccCcceEEEEecCcc
Q psy12150        136 PPFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (456)
Q Consensus       136 ~~~~iviIDE~d-~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~  178 (456)
                      .+.+++++||+- .|.......+.+.+.+......+|+++.+..
T Consensus       156 ~~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~  199 (241)
T d2pmka1         156 NNPKILIFDEATSALDYESEHVIMRNMHKICKGRTVIIIAHRLS  199 (241)
T ss_dssp             TCCSEEEECCCCSCCCHHHHHHHHHHHHHHHTTSEEEEECSSGG
T ss_pred             cccchhhhhCCccccCHHHHHHHHHHHHHHhCCCEEEEEECCHH
Confidence            355699999975 4666666666666665444445566776654

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.41  E-value=0.00096  Score=55.50  Aligned_cols=25  Identities=20%  Similarity=0.166  Sum_probs=22.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +++|.|+||+||||+++.+++.++.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg~   28 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALGY   28 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4788899999999999999999854

>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=96.34  E-value=0.0056  Score=58.23  Aligned_cols=51  Identities=18%  Similarity=0.296  Sum_probs=40.3

Q ss_pred             CCcccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         42 KTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      .+++++--.+.....+++++.... .-++|.||+|+||||++.++.+.+...
T Consensus       135 ~~l~~LG~~~~~~~~l~~l~~~~~-GliLvtGpTGSGKSTTl~~~l~~~~~~  185 (401)
T d1p9ra_         135 LDLHSLGMTAHNHDNFRRLIKRPH-GIILVTGPTGSGKSTTLYAGLQELNSS  185 (401)
T ss_dssp             CCGGGSCCCHHHHHHHHHHHTSSS-EEEEEECSTTSCHHHHHHHHHHHHCCT
T ss_pred             hhhhhhcccHHHHHHHHHHHhhhh-ceEEEEcCCCCCccHHHHHHhhhhcCC
Confidence            467777667788888888876432 129999999999999999999998653

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.33  E-value=0.0011  Score=56.19  Aligned_cols=24  Identities=21%  Similarity=0.332  Sum_probs=21.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .++|.||||+||||.++.+++.++
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~g   26 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKYG   26 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            389999999999999999999873

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.31  E-value=0.0011  Score=55.55  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=21.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||||+||||.++.+++.++
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~~   25 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAYG   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            78999999999999999999874

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.30  E-value=0.0012  Score=55.84  Aligned_cols=23  Identities=26%  Similarity=0.563  Sum_probs=21.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||||+||||.++.+++.++
T Consensus         6 iil~G~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1           6 AVLLGPPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            77899999999999999999873

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.25  E-value=0.0015  Score=55.49  Aligned_cols=27  Identities=22%  Similarity=0.333  Sum_probs=23.1

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         65 DLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        65 ~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++-.++|.||||+||||.++.+++.++
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~~g   31 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKHFE   31 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHBC
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHHC
Confidence            344588999999999999999999863

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.23  E-value=0.0013  Score=56.06  Aligned_cols=23  Identities=22%  Similarity=0.398  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      -++|.||||+||||.++.+++.+
T Consensus        10 iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999986

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.19  E-value=0.0014  Score=54.99  Aligned_cols=25  Identities=32%  Similarity=0.579  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +++|.||||+||||.++.+++.++.
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~   26 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGI   26 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
Confidence            3789999999999999999999743

>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=96.18  E-value=0.003  Score=53.18  Aligned_cols=41  Identities=17%  Similarity=0.119  Sum_probs=28.4

Q ss_pred             HHHHHHHHHhcCCCC--e-EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         53 VVSVLKKCLSGADLP--H-FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        53 ~~~~l~~~l~~~~~~--~-~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      .++.|.+.+......  - +-|.|++|+||||+++.+.+.+...
T Consensus         6 ~~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~   49 (198)
T d1rz3a_           6 RIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLREQ   49 (198)
T ss_dssp             HHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHHHHhccc
Confidence            344455444333222  2 6699999999999999999887643

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.14  E-value=0.0016  Score=56.27  Aligned_cols=25  Identities=32%  Similarity=0.468  Sum_probs=22.3

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      |-+.+.||||+||+|.++.+++.++
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3488899999999999999999973

>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=96.14  E-value=0.0017  Score=54.39  Aligned_cols=27  Identities=22%  Similarity=0.258  Sum_probs=23.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      ++|.|+||+||||+++.+++.+.....
T Consensus         4 ivi~G~~GsGKTT~~~~La~~L~~~~~   30 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVKEILDNQGI   30 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHTTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence            688999999999999999999876544

>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=96.13  E-value=0.0015  Score=54.82  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=21.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.||||+||||.++.|++.++.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~g~   26 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKYGT   26 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
Confidence            789999999999999999999743

>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=96.10  E-value=0.0016  Score=54.57  Aligned_cols=23  Identities=26%  Similarity=0.587  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||||+||||.++.+++.++
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g   27 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFH   27 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            78889999999999999999874

>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=96.08  E-value=0.014  Score=50.87  Aligned_cols=22  Identities=32%  Similarity=0.552  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +-|.||.|+||||+++.+..-+
T Consensus        35 ~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          35 LVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            8999999999999999998754

>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=95.96  E-value=0.002  Score=54.62  Aligned_cols=23  Identities=22%  Similarity=0.416  Sum_probs=21.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      -++|.||||+||||.++.+++.+
T Consensus        10 iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999986

>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=95.94  E-value=0.016  Score=51.11  Aligned_cols=22  Identities=18%  Similarity=0.293  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||+++.+..-+
T Consensus        44 iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          44 VALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             EEEEECTTSSHHHHHHHHTTTT
T ss_pred             EEEECCCCChHHHHHHHHhccc
Confidence            9999999999999999998754

>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=95.92  E-value=0.0031  Score=55.97  Aligned_cols=42  Identities=19%  Similarity=0.331  Sum_probs=27.6

Q ss_pred             CcEEEEEcCCC-CccHHHHHHHHHHHHhccCcceEEEEecCcc
Q psy12150        137 PFKIVILDEAD-SMTHAAQAALRRTMEKETKSTRFCLICNYVS  178 (456)
Q Consensus       137 ~~~iviIDE~d-~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~  178 (456)
                      +.+++++||+- .|.......+.+.+.+......+|+++.+..
T Consensus       172 ~p~ililDEpts~LD~~t~~~i~~~l~~l~~~~TvI~itH~~~  214 (255)
T d2hyda1         172 NPPILILDEATSALDLESESIIQEALDVLSKDRTTLIVAHRLS  214 (255)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEECSSGG
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            44599999975 5666666777777765444444556676554

>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=95.89  E-value=0.015  Score=47.62  Aligned_cols=22  Identities=18%  Similarity=0.372  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||+++..+...-
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999998653

>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=95.87  E-value=0.0075  Score=52.84  Aligned_cols=36  Identities=25%  Similarity=0.246  Sum_probs=27.6

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .|-..+.+|-++.  ++|+||||+|||+++..++....
T Consensus        24 ~LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          24 SLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             HHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            3445555655444  99999999999999999887654

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.87  E-value=0.0021  Score=53.76  Aligned_cols=23  Identities=17%  Similarity=0.261  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ++|.||||+||||.++.+++.++
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            68899999999999999999874

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=95.82  E-value=0.03  Score=49.77  Aligned_cols=36  Identities=25%  Similarity=0.252  Sum_probs=27.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      ..|+||+|+|||+++..++.......  ..+++++...
T Consensus        60 tei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~   95 (268)
T d1xp8a1          60 TEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEH   95 (268)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSC
T ss_pred             EEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCc
Confidence            99999999999999988887664322  2456666554

>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=95.80  E-value=0.013  Score=50.92  Aligned_cols=22  Identities=27%  Similarity=0.510  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-.
T Consensus        29 ~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          29 VVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHhcCC
Confidence            8999999999999999988744

>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=95.73  E-value=0.0047  Score=52.37  Aligned_cols=21  Identities=29%  Similarity=0.377  Sum_probs=16.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +.++.+|.|+|||.++-.++.
T Consensus        25 n~lv~~pTGsGKT~i~~~~~~   45 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAMMIAE   45 (200)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEeCCCCcHHHHHHHHHH
Confidence            478999999999987665554

>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=95.73  E-value=0.0028  Score=54.83  Aligned_cols=23  Identities=17%  Similarity=0.314  Sum_probs=20.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.+.||||+||||.++.|++.++
T Consensus         6 IaIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            56789999999999999999984

>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=95.71  E-value=0.1  Score=44.97  Aligned_cols=47  Identities=17%  Similarity=0.189  Sum_probs=37.7

Q ss_pred             cccccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         44 IDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        44 ~~~ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      |+.-..|....+.+...+..+.+-..||+|..|+|||.++-..+...
T Consensus        54 ~~lt~~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~  100 (233)
T d2eyqa3          54 FETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLA  100 (233)
T ss_dssp             SCCCHHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHH
Confidence            44445577888889999998887779999999999999887666544

>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=95.69  E-value=0.014  Score=51.06  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +-|.||.|+||||++++++.-.
T Consensus        32 ~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          32 MILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHhcCC
Confidence            8899999999999999998754

>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=95.67  E-value=0.046  Score=44.23  Aligned_cols=22  Identities=18%  Similarity=0.163  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.|++|+|||+++..+...-
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7899999999999999987643

>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=95.66  E-value=0.0058  Score=50.03  Aligned_cols=21  Identities=24%  Similarity=0.458  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988864

>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=95.60  E-value=0.028  Score=45.26  Aligned_cols=21  Identities=29%  Similarity=0.461  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|+||+||||+++++...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999753

>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=95.58  E-value=0.0038  Score=51.34  Aligned_cols=33  Identities=18%  Similarity=0.189  Sum_probs=26.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEE
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILE  101 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e  101 (456)
                      +-+.|.+|+||||++..+++.+....++.-++.
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik   36 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   36 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            569999999999999999999876555444443

>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=95.58  E-value=0.064  Score=43.45  Aligned_cols=21  Identities=19%  Similarity=0.379  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++.++...
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999999875

>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=95.54  E-value=0.018  Score=50.19  Aligned_cols=22  Identities=23%  Similarity=0.451  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-+
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            6688999999999999999855

>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=95.53  E-value=0.0039  Score=53.11  Aligned_cols=35  Identities=26%  Similarity=0.170  Sum_probs=26.4

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        57 l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      |-..+.+|-++.  ++|+||||+|||+++..++....
T Consensus        12 LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~   48 (242)
T d1n0wa_          12 LDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQ   48 (242)
T ss_dssp             HHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            444455554444  99999999999999999887654

>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=95.53  E-value=0.0045  Score=57.00  Aligned_cols=39  Identities=18%  Similarity=0.336  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         51 QEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        51 ~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +....-+..+++.+.  +++++|++|+||||++++++..+.
T Consensus       153 ~~~~~~l~~~v~~~~--nili~G~tgSGKTT~l~al~~~i~  191 (323)
T d1g6oa_         153 EQAISAIKDGIAIGK--NVIVCGGTGSGKTTYIKSIMEFIP  191 (323)
T ss_dssp             HHHHHHHHHHHHHTC--CEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             HHHHHHHHHHHHhCC--CEEEEeeccccchHHHHHHhhhcc
Confidence            455667777777664  699999999999999999998764

>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=95.52  E-value=0.07  Score=42.40  Aligned_cols=22  Identities=23%  Similarity=0.235  Sum_probs=19.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.|+||+|||++++.+...-
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999987653

>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=95.48  E-value=0.036  Score=47.99  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||+|+||||+++.++.-.
T Consensus        34 ~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          34 VSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCcchhhHhccCCC
Confidence            8999999999999999887643

>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=95.48  E-value=0.041  Score=44.66  Aligned_cols=21  Identities=19%  Similarity=0.444  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|.+|+|||++++++...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998864

>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=95.45  E-value=0.0071  Score=51.93  Aligned_cols=35  Identities=20%  Similarity=0.224  Sum_probs=26.4

Q ss_pred             HHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         57 LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        57 l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+....+....-++|+|.||+||||+++.+.+.+.
T Consensus        15 ~r~~~~~~kg~vIwltGlsGsGKTTia~~L~~~l~   49 (208)
T d1m7ga_          15 ERTELRNQRGLTIWLTGLSASGKSTLAVELEHQLV   49 (208)
T ss_dssp             HHHHHHTSSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34444444433399999999999999999998764

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.44  E-value=0.025  Score=50.24  Aligned_cols=36  Identities=22%  Similarity=0.300  Sum_probs=25.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      ..|+||+|+|||+++..++.......  ..+++++...
T Consensus        63 ~e~~G~~~~GKT~l~l~~~~~~q~~g--~~~vyIDtE~   98 (269)
T d1mo6a1          63 IEIYGPESSGKTTVALHAVANAQAAG--GVAAFIDAEH   98 (269)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHHTT--CEEEEEESSC
T ss_pred             EEEecCCCcHHHHHHHHHHHHHhcCC--CEEEEEECCc
Confidence            99999999999999877766543221  1355555554

>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=95.29  E-value=0.0048  Score=51.92  Aligned_cols=24  Identities=25%  Similarity=0.437  Sum_probs=21.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +++|.||+|+|||++++.+++...
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            489999999999999999999864

>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=95.29  E-value=0.004  Score=54.33  Aligned_cols=34  Identities=21%  Similarity=0.162  Sum_probs=25.4

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHH
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .|-..+.+|-++.  ++|+||||+|||+++..++..
T Consensus        22 ~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          22 NLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             HHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             HHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            3445555544444  999999999999999888754

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.28  E-value=0.026  Score=49.07  Aligned_cols=35  Identities=26%  Similarity=0.223  Sum_probs=26.8

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHh
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .|-+.+.+|-++.  ++|+||||+|||+++..++...
T Consensus        25 ~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          25 EFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             HHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             HHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3444555554444  9999999999999999998754

>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=95.28  E-value=0.0054  Score=51.83  Aligned_cols=24  Identities=21%  Similarity=0.427  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +++|.||+|+|||++++.+++...
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            488999999999999999999864

>d1sxjd1 a.80.1.1 (D:263-353) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.26  E-value=0.017  Score=42.21  Aligned_cols=61  Identities=18%  Similarity=0.378  Sum_probs=47.7

Q ss_pred             CHHHHHHHHcc---cchHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q psy12150        264 PKPWIEKLLKV---DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMLASSLSDKQK-ALFKALET  324 (456)
Q Consensus       264 ~~~~i~~l~~~---~~~~~a~~~~~~l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~-~l~~~~~~  324 (456)
                      |++.+.+++++   ++++++...+++++.+||+..+++.|++..+.....+++..+ .+...+..
T Consensus         2 P~~~i~~il~~~~~~~f~~a~~~i~~l~~~Gys~~dIl~~l~~~vv~~~~i~~~~k~~i~~~la~   66 (91)
T d1sxjd1           2 PHDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWLLFT   66 (91)
T ss_dssp             CSHHHHHHHHHHHSCCHHHHHHHHHHHHHTSCCCTTHHHHHHHHHHHCSSSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence            55667777777   999999999999999999999999999887655556677666 34344443

>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=95.26  E-value=0.02  Score=49.93  Aligned_cols=23  Identities=35%  Similarity=0.540  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +-|.||.|+||||+.++++..+.
T Consensus        31 ~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          31 FGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            77999999999999999988654

>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=95.13  E-value=0.041  Score=44.69  Aligned_cols=21  Identities=24%  Similarity=0.455  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++..+...
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            799999999999999998874

>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=95.05  E-value=0.014  Score=53.62  Aligned_cols=45  Identities=18%  Similarity=0.272  Sum_probs=32.9

Q ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCCCc
Q psy12150         64 ADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDR  108 (456)
Q Consensus        64 ~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~~~  108 (456)
                      ++...+-|+||||+||||++.+++..+.....+.-++.++.+...
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~   96 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPV   96 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC---
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceee
Confidence            333339999999999999999999887665555567777776543

>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=95.04  E-value=0.038  Score=45.08  Aligned_cols=21  Identities=19%  Similarity=0.382  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|.+|+|||++++.+...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=95.01  E-value=0.072  Score=43.33  Aligned_cols=34  Identities=12%  Similarity=0.229  Sum_probs=25.2

Q ss_pred             HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q psy12150         55 SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        55 ~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ..+.+++.+.. -.++|.|.+|+|||+++.++...
T Consensus         5 ~~~~~~~~~k~-~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQE-HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSC-EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCe-EEEEEECCCCCCHHHHHHHHhcC
Confidence            34555555433 24999999999999999998763

>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=95.00  E-value=0.035  Score=44.91  Aligned_cols=21  Identities=29%  Similarity=0.431  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|.+|+|||++++++...
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999998864

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=94.99  E-value=0.026  Score=49.25  Aligned_cols=22  Identities=18%  Similarity=0.285  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +-|.||+|+||||+++.++.-.
T Consensus        34 ~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          34 YGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHcCCc
Confidence            8999999999999999987644

>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=94.97  E-value=0.037  Score=44.78  Aligned_cols=22  Identities=23%  Similarity=0.342  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .++|.|++|+|||++++.+...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3899999999999999998654

>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=94.95  E-value=0.015  Score=47.95  Aligned_cols=21  Identities=24%  Similarity=0.400  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|.+|+|||++++.+...
T Consensus         9 v~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            999999999999999998864

>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=94.95  E-value=0.28  Score=39.88  Aligned_cols=21  Identities=19%  Similarity=0.294  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.|.|.+|+|||++++++...
T Consensus         8 I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           8 VAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999999864

>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=94.93  E-value=0.012  Score=48.27  Aligned_cols=21  Identities=24%  Similarity=0.379  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|++|+|||++++.+.+.
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999999874

>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=94.92  E-value=0.01  Score=52.08  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.+..-+
T Consensus        31 vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          31 IAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHHHhh
Confidence            8999999999999999998754

>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=94.91  E-value=0.0091  Score=50.73  Aligned_cols=38  Identities=16%  Similarity=0.227  Sum_probs=23.8

Q ss_pred             CcEEEEEcCCCCccHH----HHHHHHHHHHhccCcceEEEEe
Q psy12150        137 PFKIVILDEADSMTHA----AQAALRRTMEKETKSTRFCLIC  174 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~----~~~~Ll~~le~~~~~~~lIl~~  174 (456)
                      ...+||+||+|.+...    ..+.++..+...++.+.+++.+
T Consensus       138 ~~~~ii~DE~h~~~~~~r~~~~~~~l~~i~~~~~~~~~l~lS  179 (202)
T d2p6ra3         138 AVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLS  179 (202)
T ss_dssp             GCCEEEETTGGGGGCTTTHHHHHHHHHHHHHHCTTCEEEEEE
T ss_pred             hhhhccccHHHHhcccccchHHHHHHHHHHhcCCCCcEEEEc
Confidence            3459999999988542    3445566665555555555443

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=94.87  E-value=0.011  Score=48.17  Aligned_cols=24  Identities=21%  Similarity=0.220  Sum_probs=22.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|+|+=|+|||++++.+++.++.
T Consensus        36 i~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          36 VYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             EEEecCCCccHHHHHHHHHhhccc
Confidence            889999999999999999999864

>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=94.85  E-value=0.041  Score=45.09  Aligned_cols=21  Identities=19%  Similarity=0.562  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            789999999999999998764

>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=94.73  E-value=0.025  Score=48.97  Aligned_cols=36  Identities=33%  Similarity=0.412  Sum_probs=27.5

Q ss_pred             HHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         56 VLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        56 ~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .|-+.+.+|-++.  ++|+|+||+|||+++..++..+.
T Consensus        22 ~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          22 ELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             HHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4455555554443  99999999999999999987664

>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=94.72  E-value=0.018  Score=52.80  Aligned_cols=38  Identities=26%  Similarity=0.316  Sum_probs=29.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD  106 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~~  106 (456)
                      +=|+|+||+||||++.++.+.+.....+.-++.++.+.
T Consensus        54 igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss   91 (323)
T d2qm8a1          54 VGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSS   91 (323)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGG
T ss_pred             EeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeeccccc
Confidence            99999999999999999998775544555566665554

>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=94.70  E-value=0.029  Score=45.93  Aligned_cols=21  Identities=24%  Similarity=0.400  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|.+|+|||++++.+...
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999998864

>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=94.68  E-value=0.15  Score=44.07  Aligned_cols=23  Identities=22%  Similarity=0.291  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .++|+||..+|||++++.++-..
T Consensus        43 ~~iiTGpN~~GKSt~lk~i~l~~   65 (234)
T d1wb9a2          43 MLIITGPNMGGKSTYMRQTALIA   65 (234)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEeccCchhhHHHHHHHHHHH
Confidence            38999999999999999887543

>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=94.66  E-value=0.0087  Score=49.93  Aligned_cols=22  Identities=18%  Similarity=0.469  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.||+|+||||+++.+.+..
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            7899999999999999999875

>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=94.65  E-value=0.026  Score=49.25  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-.
T Consensus        34 ~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          34 FGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHHcCc
Confidence            8999999999999999998744

>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=94.65  E-value=0.041  Score=47.03  Aligned_cols=41  Identities=22%  Similarity=0.245  Sum_probs=27.7

Q ss_pred             CCcccccccHHHHHHHHHH---------------HhcCCCCeEEEECCCCCcHHHHHH
Q psy12150         42 KTIDDVIEQQEVVSVLKKC---------------LSGADLPHFLFYGPPGTGKTSTMI   84 (456)
Q Consensus        42 ~~~~~ivg~~~~~~~l~~~---------------l~~~~~~~~Ll~G~~G~GKT~~a~   84 (456)
                      .+|+++--.+..++.|.+.               +-.|  .++++..|+|+|||.+.-
T Consensus        10 ~sF~~l~l~~~l~~~L~~~g~~~pt~iQ~~aip~il~g--~dvl~~a~TGsGKT~a~~   65 (212)
T d1qdea_          10 YKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEG--HDVLAQAQSGTGKTGTFS   65 (212)
T ss_dssp             CCGGGGTCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHH
T ss_pred             cChhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcC--CCEEeecccccchhhhhH
Confidence            3677775566666666532               1222  249999999999999754

>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=94.63  E-value=0.062  Score=43.83  Aligned_cols=20  Identities=25%  Similarity=0.396  Sum_probs=18.5

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +++.|++|+|||++++++..
T Consensus        19 I~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          19 ILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEESTTSSHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            99999999999999998854

>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=94.57  E-value=0.096  Score=44.77  Aligned_cols=39  Identities=26%  Similarity=0.395  Sum_probs=24.6

Q ss_pred             CcEEEEEcCCCCccHHH-HHHHHHHHHhccCcceEEEEec
Q psy12150        137 PFKIVILDEADSMTHAA-QAALRRTMEKETKSTRFCLICN  175 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~~-~~~Ll~~le~~~~~~~lIl~~~  175 (456)
                      .-+.+|+||+|.|.... .+.+.++++..+....+++.+.
T Consensus       155 ~l~~lVlDEaD~ll~~~f~~~~~~Il~~~~~~~Q~il~SA  194 (218)
T d2g9na1         155 YIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSA  194 (218)
T ss_dssp             TCCEEEEESHHHHHHTTCHHHHHHHHHHSCTTCEEEEEES
T ss_pred             cceEEEeeecchhhcCchHHHHHHHHHhCCCCCeEEEEEe
Confidence            45699999999986542 3445555555555555555544

>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=94.53  E-value=0.055  Score=43.90  Aligned_cols=22  Identities=18%  Similarity=0.455  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|.+|+|||++++.+...-
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999988753

>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=94.51  E-value=0.081  Score=44.50  Aligned_cols=22  Identities=27%  Similarity=0.319  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++|.|+||+|||++.+++...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999999874

>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=94.49  E-value=0.027  Score=47.29  Aligned_cols=21  Identities=24%  Similarity=0.543  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|++|+|||+++..+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            899999999999999998864

>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=94.44  E-value=0.082  Score=43.00  Aligned_cols=21  Identities=24%  Similarity=0.439  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|.+|+|||+++..+...
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998874

>d1sxjc1 a.80.1.1 (C:239-333) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.44  E-value=0.068  Score=39.17  Aligned_cols=63  Identities=11%  Similarity=0.162  Sum_probs=47.2

Q ss_pred             CHHHHHHHHcc---cchHHHHHHHHHHH-HhccCHHHHHHHHHHHHHHHhcCCHHHH-HHHHHHHHHH
Q psy12150        264 PKPWIEKLLKV---DSFQVLEKYIEDLI-LEAYSATQLFDQFHDIVMLASSLSDKQK-ALFKALETLV  326 (456)
Q Consensus       264 ~~~~i~~l~~~---~~~~~a~~~~~~l~-~~~~~~~~i~~q~~~l~~~~~~~~~~~~-~l~~~~~~~~  326 (456)
                      .|+.+.++++.   ++|++|...+++++ .+|+++.+|++|++..+.....+++..+ .+...+..+.
T Consensus         2 ~P~~I~~il~~~l~~~f~~a~~~l~~l~~~~G~s~~dIl~~l~~~i~~~~~~~~~~k~~ll~~la~~e   69 (95)
T d1sxjc1           2 RPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIE   69 (95)
T ss_dssp             CHHHHHHHHHHHHTSCHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            35566777777   99999999999986 6699999999999998866555555554 3555555443

>d1iqpa1 a.80.1.1 (A:233-327) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.42  E-value=0.074  Score=38.96  Aligned_cols=62  Identities=13%  Similarity=0.245  Sum_probs=47.7

Q ss_pred             CCHHHHHHHHcc---cchHHHHHHHHHHH-HhccCHHHHHHHHHHHHHHHhcCCHHHH-HHHHHHHHH
Q psy12150        263 IPKPWIEKLLKV---DSFQVLEKYIEDLI-LEAYSATQLFDQFHDIVMLASSLSDKQK-ALFKALETL  325 (456)
Q Consensus       263 ~~~~~i~~l~~~---~~~~~a~~~~~~l~-~~~~~~~~i~~q~~~l~~~~~~~~~~~~-~l~~~~~~~  325 (456)
                      ..|+.+.++++.   +++.+|...+++++ .+|+++.+|+++|+..+. ...+.+..+ .+...+..+
T Consensus         2 a~P~~I~~il~~~l~~~f~~a~~~l~~l~~~~G~s~~dIl~~l~~~v~-~~~~~~~~k~~ll~~la~~   68 (95)
T d1iqpa1           2 ARPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVF-NLPIEEPKKVLLADKIGEY   68 (95)
T ss_dssp             CCHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHGG-GSSSCHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHh-hcCCCHHHHHHHHHHHHHH
Confidence            456778888887   99999999999985 679999999999998774 445666655 444555444

>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=94.38  E-value=0.028  Score=45.90  Aligned_cols=21  Identities=29%  Similarity=0.428  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++..+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            899999999999999998864

>d1sxjb1 a.80.1.1 (B:231-322) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.36  E-value=0.061  Score=39.20  Aligned_cols=62  Identities=10%  Similarity=0.173  Sum_probs=47.0

Q ss_pred             CHHHHHHHHcccchHHHHHHHHH-HHHhccCHHHHHHHHHHHHHHHhcCCHHHH-HHHHHHHHH
Q psy12150        264 PKPWIEKLLKVDSFQVLEKYIED-LILEAYSATQLFDQFHDIVMLASSLSDKQK-ALFKALETL  325 (456)
Q Consensus       264 ~~~~i~~l~~~~~~~~a~~~~~~-l~~~~~~~~~i~~q~~~l~~~~~~~~~~~~-~l~~~~~~~  325 (456)
                      .|+.+.+++..+++.+|...+.+ +..+||+..+|++||+..+.....+++..+ .+.+.+...
T Consensus         2 ~P~~I~~il~~~~f~~a~~~l~~~l~~~Gys~~DIi~~l~~~i~~~~~~~e~~k~~il~~la~~   65 (92)
T d1sxjb1           2 HPLIVKKMLLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLT   65 (92)
T ss_dssp             CHHHHHHHHSCSSHHHHHHHHHHTTTTTTCCHHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHH
Confidence            46777888888999999999988 457899999999999998865445666555 444444433

>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=94.22  E-value=0.056  Score=47.07  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +-|.||.|+||||+++++...+
T Consensus        35 ~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          35 VTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            8899999999999999998755

>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=94.13  E-value=0.1  Score=44.72  Aligned_cols=39  Identities=26%  Similarity=0.367  Sum_probs=24.3

Q ss_pred             CcEEEEEcCCCCccHH-HHHHHHHHHHhccCcceEEEEec
Q psy12150        137 PFKIVILDEADSMTHA-AQAALRRTMEKETKSTRFCLICN  175 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~-~~~~Ll~~le~~~~~~~lIl~~~  175 (456)
                      .-+.+|+||+|.|... ....+..++..-+....+++.+.
T Consensus       159 ~l~~lVlDEaD~ll~~~f~~~i~~I~~~l~~~~Q~ilfSA  198 (222)
T d2j0sa1         159 AIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISA  198 (222)
T ss_dssp             TCCEEEEETHHHHTSTTTHHHHHHHHTTSCTTCEEEEEES
T ss_pred             cceeeeecchhHhhhcCcHHHHHHHHHhCCCCCEEEEEEE
Confidence            4569999999988653 34455556655555555555443

>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=94.09  E-value=0.034  Score=45.36  Aligned_cols=21  Identities=24%  Similarity=0.466  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|.+|+|||+++..+...
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988764

>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=94.09  E-value=0.025  Score=46.57  Aligned_cols=21  Identities=19%  Similarity=0.412  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++.+...
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>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=94.01  E-value=0.042  Score=44.76  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=18.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++.+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            789999999999999988754

>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=93.98  E-value=0.013  Score=50.47  Aligned_cols=32  Identities=28%  Similarity=0.179  Sum_probs=23.2

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHH
Q psy12150         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        57 l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      |-+.+.+|-++.  ++|+|+||+|||+++..++.
T Consensus        15 LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          15 FDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             HHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            444455554444  99999999999999976554

>d1jr3a1 a.80.1.1 (A:243-368) gamma subunit {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: gamma subunit
species: Escherichia coli [TaxId: 562]

Probab=93.95  E-value=0.23  Score=38.08  Aligned_cols=40  Identities=8%  Similarity=-0.012  Sum_probs=34.3

Q ss_pred             CCCHHHHHHHHHHHHHHHhhhhcCCChhHHHHHHHHHHHH
Q psy12150        411 SLSDKQKALILEKLAECNARLQDGASEYIQILDLGSIVIK  450 (456)
Q Consensus       411 ~~~~~~~~~~~~~l~~~~~~l~~g~~~~~ql~~l~~~~~~  450 (456)
                      .++......+++.+.+....++...+.++.+.-.+.++..
T Consensus        77 ~~~~~~L~~~~~il~~~~~~ik~s~~~r~~~Em~llrll~  116 (126)
T d1jr3a1          77 TIPPTDIQLYYQTLLIGRKELPYAPDRRMGVEMTLLRALA  116 (126)
T ss_dssp             HSCHHHHHHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Confidence            4788888999999999999999999999999887777654

>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=93.91  E-value=0.05  Score=44.47  Aligned_cols=21  Identities=24%  Similarity=0.333  Sum_probs=19.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      .+++.|++|+|||++++++..
T Consensus        14 kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            499999999999999998864

>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=93.90  E-value=0.019  Score=47.18  Aligned_cols=21  Identities=29%  Similarity=0.398  Sum_probs=17.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++.++...
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999987654

>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=93.88  E-value=0.12  Score=41.97  Aligned_cols=21  Identities=24%  Similarity=0.436  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++.+...
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>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=93.73  E-value=0.02  Score=48.84  Aligned_cols=24  Identities=21%  Similarity=0.139  Sum_probs=21.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +-|.|++|+||||+++.+++.+..
T Consensus         5 IgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           5 IGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhch
Confidence            569999999999999999998754

>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=93.72  E-value=0.16  Score=42.72  Aligned_cols=38  Identities=18%  Similarity=0.256  Sum_probs=23.1

Q ss_pred             CcEEEEEcCCCCccHH-HHHHHHHHHHhccCcceEEEEe
Q psy12150        137 PFKIVILDEADSMTHA-AQAALRRTMEKETKSTRFCLIC  174 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~-~~~~Ll~~le~~~~~~~lIl~~  174 (456)
                      .-+.+|+||+|.|... ..+.+..++...+....+++.+
T Consensus       143 ~l~~lV~DEaD~l~~~~f~~~v~~I~~~l~~~~Q~il~S  181 (206)
T d1s2ma1         143 DCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFS  181 (206)
T ss_dssp             TCCEEEEESHHHHSSHHHHHHHHHHHTTSCSSCEEEEEE
T ss_pred             cceEEEeechhhhhhhhhHHHHHHHHHhCCCCCEEEEEE
Confidence            3458999999988764 3444555555544444444444

>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=93.71  E-value=0.15  Score=43.03  Aligned_cols=39  Identities=18%  Similarity=0.296  Sum_probs=24.1

Q ss_pred             CcEEEEEcCCCCccH--HHHHHHHHHHHhccCcceEEEEec
Q psy12150        137 PFKIVILDEADSMTH--AAQAALRRTMEKETKSTRFCLICN  175 (456)
Q Consensus       137 ~~~iviIDE~d~l~~--~~~~~Ll~~le~~~~~~~lIl~~~  175 (456)
                      .-+.+++||+|.|..  ...+.+.+++...+....+++.+.
T Consensus       145 ~l~~lVlDEaD~ll~~~~~~~~i~~I~~~~~~~~Q~il~SA  185 (207)
T d1t6na_         145 HIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSA  185 (207)
T ss_dssp             TCCEEEEESHHHHHSSHHHHHHHHHHHHTSCSSSEEEEEES
T ss_pred             ccceeehhhhhhhhhcCCcHHHHHHHHHhCCCCCEEEEEee
Confidence            446999999998764  344455555555555555555443

>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=93.69  E-value=0.1  Score=44.07  Aligned_cols=41  Identities=17%  Similarity=0.213  Sum_probs=26.6

Q ss_pred             CCCcccccccHHHHHHHHHH---------------HhcCCCCeEEEECCCCCcHHHHH
Q psy12150         41 PKTIDDVIEQQEVVSVLKKC---------------LSGADLPHFLFYGPPGTGKTSTM   83 (456)
Q Consensus        41 P~~~~~ivg~~~~~~~l~~~---------------l~~~~~~~~Ll~G~~G~GKT~~a   83 (456)
                      +++|+++--.+++++.|.+.               +-.|  .++++..|+|+|||.+.
T Consensus         2 ~~~F~~l~L~~~l~~~l~~~g~~~pt~iQ~~aip~il~g--~dvl~~a~TGsGKTlay   57 (206)
T d1veca_           2 GNEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSG--RDILARAKNGTGKSGAY   57 (206)
T ss_dssp             CSSGGGSCCCHHHHHHHHTTTCCSCCHHHHHHHHHHHTT--CCEEEECCSSSTTHHHH
T ss_pred             CCChhccCcCHHHHHHHHHCCCCCCCHHHHHHHHHHHcC--CCEEeeccCcccccccc
Confidence            45677765556555555322               2223  25999999999999764

>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=93.64  E-value=0.16  Score=41.01  Aligned_cols=21  Identities=19%  Similarity=0.439  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++..+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998865

>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=93.59  E-value=0.075  Score=42.01  Aligned_cols=27  Identities=11%  Similarity=0.215  Sum_probs=19.4

Q ss_pred             CcEEEEEcCCCCccHHHHHHHHHHHHhc
Q psy12150        137 PFKIVILDEADSMTHAAQAALRRTMEKE  164 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~~~~~Ll~~le~~  164 (456)
                      ...+|+|||+++++. ....+...+.+.
T Consensus        79 ~~dvI~IDE~QFf~d-~i~~~~~~~~~~  105 (139)
T d2b8ta1          79 ETKVIGIDEVQFFDD-RICEVANILAEN  105 (139)
T ss_dssp             TCCEEEECSGGGSCT-HHHHHHHHHHHT
T ss_pred             CcCEEEechhhhcch-hHHHHHHHHHhc
Confidence            456999999999974 455566666554

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

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: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=93.54  E-value=0.13  Score=45.79  Aligned_cols=18  Identities=33%  Similarity=0.656  Sum_probs=14.4

Q ss_pred             CCcEEEEEcCCCCccHHH
Q psy12150        136 PPFKIVILDEADSMTHAA  153 (456)
Q Consensus       136 ~~~~iviIDE~d~l~~~~  153 (456)
                      .+.++||+||+|.+....
T Consensus        99 ~~~~~vViDE~H~~~~~~  116 (305)
T d2bmfa2          99 PNYNLIIMDEAHFTDPAS  116 (305)
T ss_dssp             CCCSEEEEESTTCCSHHH
T ss_pred             cceeEEEeeeeeecchhh
Confidence            356799999999997654

>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=93.51  E-value=0.021  Score=48.65  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=20.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.||+|+|||++.+.+.+..
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            8999999999999999999875

>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=93.50  E-value=0.036  Score=47.04  Aligned_cols=26  Identities=23%  Similarity=0.184  Sum_probs=22.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDM   94 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~   94 (456)
                      +.|.|+.|+||||.++.+++.+....
T Consensus         5 IviEG~dGsGKsT~~~~L~~~L~~~g   30 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVETLEQLG   30 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCC
Confidence            78899999999999999999886543

>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=93.42  E-value=0.28  Score=41.93  Aligned_cols=21  Identities=24%  Similarity=0.346  Sum_probs=18.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|+||...|||++++.++-.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~l~   58 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTALI   58 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhHHH
Confidence            899999999999999987654

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {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: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=93.42  E-value=0.11  Score=43.76  Aligned_cols=39  Identities=18%  Similarity=0.284  Sum_probs=24.1

Q ss_pred             CcEEEEEcCCCCccHHH-HHHHHHHHHhccCcceEEEEec
Q psy12150        137 PFKIVILDEADSMTHAA-QAALRRTMEKETKSTRFCLICN  175 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~~-~~~Ll~~le~~~~~~~lIl~~~  175 (456)
                      +-+.+++||+|.+.... .+.+..++..-++...+++.+.
T Consensus       147 ~l~~lViDEad~ll~~~f~~~v~~I~~~~~~~~Q~il~SA  186 (209)
T d1q0ua_         147 TAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFSA  186 (209)
T ss_dssp             GCCEEEECSHHHHHHTTCHHHHHHHHHTSCTTCEEEEEES
T ss_pred             cceEEEEeecccccccccHHHHHHHHHHCCCCCEEEEEEc
Confidence            34589999999987642 3344555555455555555543

>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=93.38  E-value=0.024  Score=47.14  Aligned_cols=23  Identities=13%  Similarity=0.286  Sum_probs=20.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .++|.||+|+||+++++.+.+..
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             cEEEECCCCCCHHHHHHHHHHhC
Confidence            48999999999999999999864

>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=93.33  E-value=0.041  Score=44.63  Aligned_cols=21  Identities=24%  Similarity=0.534  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++.+...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998874

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.31  E-value=0.03  Score=47.75  Aligned_cols=27  Identities=15%  Similarity=0.139  Sum_probs=23.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      +.|.|+.|+||||.++.+++.+.....
T Consensus         6 I~ieG~dGsGKsT~~~~L~~~L~~~g~   32 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVEALCAAGH   32 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            778899999999999999998865444

>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=93.24  E-value=0.64  Score=38.87  Aligned_cols=38  Identities=29%  Similarity=0.371  Sum_probs=23.7

Q ss_pred             CcEEEEEcCCCCccHH-HHHHHHHHHHhccCcceEEEEe
Q psy12150        137 PFKIVILDEADSMTHA-AQAALRRTMEKETKSTRFCLIC  174 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~-~~~~Ll~~le~~~~~~~lIl~~  174 (456)
                      +-+.+|+||+|.+... ....+.++++..+....+++.+
T Consensus       145 ~l~~lViDEad~l~~~~~~~~i~~I~~~~~~~~Q~i~~S  183 (208)
T d1hv8a1         145 NVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFS  183 (208)
T ss_dssp             SCCEEEEETHHHHHTTTTHHHHHHHHHTSCSSCEEEEEC
T ss_pred             cCcEEEEEChHHhhcCCChHHHHHHHHhCCCCCeEEEEE
Confidence            4469999999986432 3344556666555555555544

>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=93.10  E-value=0.11  Score=46.81  Aligned_cols=24  Identities=21%  Similarity=0.140  Sum_probs=22.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +-|.|++|+||||+++.+...+..
T Consensus        83 IGIaG~sgSGKSTla~~L~~lL~~  106 (308)
T d1sq5a_          83 ISIAGSVAVGKSTTARVLQALLSR  106 (308)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHTT
T ss_pred             EEEeCCCCCCCcHHHHHHHHHHhh
Confidence            789999999999999999998854

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.10  E-value=0.043  Score=46.27  Aligned_cols=27  Identities=15%  Similarity=0.110  Sum_probs=23.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCcc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMY   95 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~   95 (456)
                      +.|.|..|+||||+++.+.+.+.....
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~g~   29 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAAGR   29 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            678999999999999999998865433

>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=93.01  E-value=0.028  Score=48.64  Aligned_cols=24  Identities=29%  Similarity=0.350  Sum_probs=21.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      ++|.|++|+||||+++++.+.+..
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~~   26 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLED   26 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHhh
Confidence            689999999999999999987643

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=93.00  E-value=0.21  Score=43.62  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +-|.||.|+||||+++.+...+
T Consensus        33 ~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          33 TLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHHCCC
Confidence            7899999999999999998754

>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=92.91  E-value=0.07  Score=47.65  Aligned_cols=35  Identities=26%  Similarity=0.479  Sum_probs=25.0

Q ss_pred             HHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         57 LKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        57 l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +..+...++..+  +-|.|++|+||||++..+...+.
T Consensus        16 ~~~~~~~~~~~P~iIGi~G~qGSGKSTl~~~l~~~L~   52 (286)
T d1odfa_          16 IPEWFETGNKCPLFIFFSGPQGSGKSFTSIQIYNHLM   52 (286)
T ss_dssp             HHHHHTTTCCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCCCEEEEeECCCCCCHHHHHHHHHHHHH
Confidence            334444444434  56899999999999998887764

>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=92.66  E-value=0.033  Score=44.87  Aligned_cols=21  Identities=29%  Similarity=0.396  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|.||+|||++++++...
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999999775

>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=92.51  E-value=0.046  Score=48.95  Aligned_cols=18  Identities=28%  Similarity=0.407  Sum_probs=15.2

Q ss_pred             CeEEEECCCCCcHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMI   84 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~   84 (456)
                      .+++|.|+||||||+++-
T Consensus        15 ~~~lI~g~aGTGKTt~l~   32 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVIT   32 (306)
T ss_dssp             SEEEECCCTTSCHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHH
Confidence            459999999999998753

>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=92.50  E-value=0.037  Score=46.61  Aligned_cols=23  Identities=30%  Similarity=0.566  Sum_probs=20.8

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      |.++|.|+||+||||++.++...
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45999999999999999999875

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.49  E-value=0.036  Score=44.29  Aligned_cols=21  Identities=29%  Similarity=0.447  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|+||+|||+++.++...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999875

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=92.46  E-value=0.044  Score=44.85  Aligned_cols=21  Identities=24%  Similarity=0.400  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|++|+|||++..++...
T Consensus        16 I~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          16 LVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             EEEEEETTSSHHHHHHHHSCC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            999999999999999988653

>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=92.44  E-value=0.093  Score=47.26  Aligned_cols=53  Identities=17%  Similarity=0.325  Sum_probs=28.4

Q ss_pred             CeEEEECCCCCcHHHHHH-HHHHHhcCC-ccccceEEeeCCCCcChHHHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMI-AACHQLFGD-MYRERILELNASDDRGIQVIRDKVKTF  120 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~-~l~~~l~~~-~~~~~~~e~n~~~~~~~~~i~~~l~~~  120 (456)
                      .++++.|+||||||+++- .++..+... ..+..++-+..+. .....+...+...
T Consensus        25 g~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~-~aa~~~~~~~~~~   79 (318)
T d1pjra1          25 GPLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTN-KAAREMRERVQSL   79 (318)
T ss_dssp             SCEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSH-HHHHHHHHHHHHH
T ss_pred             CCEEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccH-HHHHHHHHHHHhh
Confidence            359999999999998654 444443322 1222444444333 2233444444433

>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=92.07  E-value=0.03  Score=46.90  Aligned_cols=24  Identities=25%  Similarity=0.185  Sum_probs=21.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.|.|+.|+||||+++.+++.+..
T Consensus        12 I~ieG~~GsGKTTl~~~L~~~l~~   35 (197)
T d2vp4a1          12 VLIEGNIGSGKTTYLNHFEKYKND   35 (197)
T ss_dssp             EEEECSTTSCHHHHHHTTGGGTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            899999999999999999988743

>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=92.04  E-value=0.59  Score=40.82  Aligned_cols=43  Identities=19%  Similarity=0.201  Sum_probs=35.2

Q ss_pred             ccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         49 EQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        49 g~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .|..+++++.+.+.++.+-+-||+|..|+|||.++-..+....
T Consensus        87 ~Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~~  129 (264)
T d1gm5a3          87 AQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDNY  129 (264)
T ss_dssp             HHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHHHH
Confidence            4777888888888888776789999999999999877665543

>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=91.84  E-value=0.058  Score=44.08  Aligned_cols=21  Identities=29%  Similarity=0.555  Sum_probs=8.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|.+|+|||++++++...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988753

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.61  E-value=0.055  Score=42.47  Aligned_cols=35  Identities=17%  Similarity=0.333  Sum_probs=22.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      -+++||-.+|||+-.-..++.......  .++-++.+
T Consensus         5 ~li~GpMfsGKTt~Li~~~~~~~~~g~--~v~~ikp~   39 (133)
T d1xbta1           5 QVILGPMFSGKSTELMRRVRRFQIAQY--KCLVIKYA   39 (133)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTC--CEEEEEET
T ss_pred             EEEEecccCHHHHHHHHHHHHHHHcCC--cEEEEecc
Confidence            478999999999977666555433222  34455544

>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=91.53  E-value=0.081  Score=45.39  Aligned_cols=35  Identities=29%  Similarity=0.274  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHH
Q psy12150         52 EVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        52 ~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .-++.|++++++.   -.+|.|++|+||||++.++...
T Consensus        84 ~g~~~L~~~l~~k---t~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          84 MGIEELKEYLKGK---ISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             TTHHHHHHHHSSS---EEEEECSTTSSHHHHHHHHSTT
T ss_pred             hhHhhHHHHhcCC---eEEEECCCCCCHHHHHHhhcch
Confidence            3356677777532   3799999999999999988654

>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=91.45  E-value=0.056  Score=43.99  Aligned_cols=22  Identities=18%  Similarity=0.454  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||++++.+...-
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999998753

>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=91.42  E-value=0.056  Score=43.84  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|.+|+|||++++.+...
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999998864

>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=91.29  E-value=0.056  Score=45.06  Aligned_cols=24  Identities=25%  Similarity=0.407  Sum_probs=20.9

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHH
Q psy12150         65 DLPHFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        65 ~~~~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      ..|.+.|.|+||+||||+++++..
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcC
Confidence            445699999999999999999974

>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=91.07  E-value=0.049  Score=46.05  Aligned_cols=22  Identities=36%  Similarity=0.551  Sum_probs=20.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+.+.++..+
T Consensus        30 ~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          30 VNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCChHHHHHHHHhccc
Confidence            7899999999999999998755

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {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: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=91.05  E-value=0.25  Score=43.80  Aligned_cols=41  Identities=7%  Similarity=0.019  Sum_probs=31.1

Q ss_pred             ccccHHHHHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         47 VIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        47 ivg~~~~~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.-++...+.+..+++.+   +.++.-|.|+|||..+-.++..+
T Consensus       112 ~~~rdyQ~~av~~~l~~~---~~il~~pTGsGKT~i~~~i~~~~  152 (282)
T d1rifa_         112 IEPHWYQKDAVFEGLVNR---RRILNLPTSAGRSLIQALLARYY  152 (282)
T ss_dssp             CCCCHHHHHHHHHHHHHS---EEEECCCTTSCHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHhcC---CceeEEEcccCccHHHHHHHHHh
Confidence            344677778888888764   35777899999999888777654

>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=91.00  E-value=0.071  Score=43.95  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|.+|+|||++++++...-
T Consensus         8 ivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           8 CVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999988753

>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=90.83  E-value=0.065  Score=43.59  Aligned_cols=20  Identities=25%  Similarity=0.451  Sum_probs=18.5

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +.+.|++|+||||+++++..
T Consensus         3 V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           3 VLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            78999999999999999974

>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=90.79  E-value=0.068  Score=44.03  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .++|.|++|+|||+++..+.+.
T Consensus        16 gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          16 GVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHc
Confidence            3999999999999999988875

>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=90.75  E-value=0.07  Score=44.01  Aligned_cols=21  Identities=33%  Similarity=0.506  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|.+|+|||+++..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999998864

>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=90.75  E-value=0.067  Score=44.21  Aligned_cols=21  Identities=29%  Similarity=0.447  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||++++.+.+.
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            889999999999999988753

>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=90.68  E-value=0.073  Score=43.40  Aligned_cols=21  Identities=33%  Similarity=0.499  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++..+...
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999998763

>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=90.62  E-value=0.27  Score=44.53  Aligned_cols=24  Identities=29%  Similarity=0.254  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.|-|+-|+||||+++.+++.+..
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            789999999999999999887643

>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=90.60  E-value=0.075  Score=42.82  Aligned_cols=21  Identities=24%  Similarity=0.422  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|++|+|||+++..+...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999999864

>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=90.59  E-value=0.068  Score=46.16  Aligned_cols=24  Identities=13%  Similarity=0.072  Sum_probs=22.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.|-|+.|+||||+++.+++.+..
T Consensus         5 IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           5 LSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhh
Confidence            899999999999999999998754

>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=90.56  E-value=0.076  Score=43.00  Aligned_cols=22  Identities=27%  Similarity=0.379  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.|.+|+|||++++++...-
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8899999999999999998743

>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=90.55  E-value=0.074  Score=43.42  Aligned_cols=21  Identities=29%  Similarity=0.431  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|++|+|||+++..+.+.
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999988764

>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=90.32  E-value=0.071  Score=43.17  Aligned_cols=21  Identities=24%  Similarity=0.260  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|++|+|||++++.+...
T Consensus         7 v~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

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: Clostridium acetobutylicum [TaxId: 1488]

Probab=90.16  E-value=0.21  Score=39.31  Aligned_cols=22  Identities=23%  Similarity=0.363  Sum_probs=17.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      -++.||-.+|||+-.-..++..
T Consensus        10 ~lI~GpMfSGKTteLi~~~~~~   31 (141)
T d1xx6a1          10 EVIVGPMYSGKSEELIRRIRRA   31 (141)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEeccccHHHHHHHHHHHHh
Confidence            5789999999999776666544

>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=90.09  E-value=0.037  Score=49.49  Aligned_cols=27  Identities=15%  Similarity=0.225  Sum_probs=20.2

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      |-+-+.|++|+||||+++++.+.+...
T Consensus         5 pIIgIaG~SGSGKTTva~~l~~i~~~~   31 (288)
T d1a7ja_           5 PIISVTGSSGAGTSTVKHTFDQIFRRE   31 (288)
T ss_dssp             CEEEEESCC---CCTHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHhhc
Confidence            348999999999999999999877543

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

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: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=90.01  E-value=0.22  Score=50.13  Aligned_cols=62  Identities=11%  Similarity=0.108  Sum_probs=45.0

Q ss_pred             CCCCCcchhccCCCCcccccccHHHH--HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         29 RNKPVPWVEKYRPKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        29 ~~~~~~w~eky~P~~~~~ivg~~~~~--~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      .-.+.-++++|+.+...++.-+--.+  .........++...+++.|++|+|||..++.+.+.+
T Consensus        47 ~~y~~~~~~~y~~~~~~~~~PHif~iA~~Ay~~l~~~~~~QsIiisGeSGsGKTe~~k~il~yL  110 (684)
T d1lkxa_          47 NIYKESDIKAYNGRYKYEMPPHMYALANDAYRSMRQSQENQCVIISGESGAGKTEASKKIMQFL  110 (684)
T ss_dssp             SCCSHHHHHHHSSCCGGGSCCCHHHHHHHHHHHHHHHCCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHcCCCCCCCCChHHHHHHHHHHHHHHcCCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34555678888877666655444333  345555666666669999999999999999999876

>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=90.00  E-value=0.094  Score=43.47  Aligned_cols=20  Identities=20%  Similarity=0.225  Sum_probs=17.5

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +-|+|++|+||||+++.+.+
T Consensus         6 IgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           6 IGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56899999999999998854

>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=89.98  E-value=0.077  Score=43.42  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||+++..+...-
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999988753

>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=89.90  E-value=0.16  Score=44.53  Aligned_cols=35  Identities=29%  Similarity=0.322  Sum_probs=25.2

Q ss_pred             HHHHHHHhcCCCCe--EEEECCCCCcHHHHHHHHHHH
Q psy12150         55 SVLKKCLSGADLPH--FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        55 ~~l~~~l~~~~~~~--~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .++...++......  ++|.|.+|+|||++...+...
T Consensus        19 ~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          19 LELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            34444444433333  999999999999999999864

>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=89.88  E-value=0.091  Score=43.00  Aligned_cols=21  Identities=29%  Similarity=0.542  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|.+|+|||++++++...
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998864

>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=89.87  E-value=0.08  Score=43.15  Aligned_cols=21  Identities=33%  Similarity=0.548  Sum_probs=19.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|.+|+|||++++.+...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>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=89.69  E-value=0.086  Score=46.41  Aligned_cols=38  Identities=24%  Similarity=0.293  Sum_probs=27.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCc--------cccceEEeeCCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDM--------YRERILELNASD  106 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~--------~~~~~~e~n~~~  106 (456)
                      .+|+|++|+|||+++..++..+....        ....++.++..+
T Consensus        32 ~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~   77 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAED   77 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSS
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEeccc
Confidence            88999999999999999887754311        123566666654

>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=89.69  E-value=0.14  Score=45.09  Aligned_cols=35  Identities=11%  Similarity=-0.015  Sum_probs=25.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc-CCccccceEEeeCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF-GDMYRERILELNAS  105 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~-~~~~~~~~~e~n~~  105 (456)
                      ++|.|+||+|||+++..++..+. ....  ++..++..
T Consensus        38 ~vi~G~~G~GKT~~~~~la~~~a~~~g~--~v~~~s~E   73 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQALQWGTAMGK--KVGLAMLE   73 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTSCC--CEEEEESS
T ss_pred             EEEEeCCCCCHHHHHHHHHHhhhhhccc--ceeEeeec
Confidence            99999999999999998886542 2222  45555544

>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=89.48  E-value=0.089  Score=43.26  Aligned_cols=22  Identities=18%  Similarity=0.268  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.|++|+|||++++.+.+.-
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999988753

>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=89.42  E-value=0.088  Score=43.02  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .++|.|++|+|||+++..+.+.
T Consensus        17 gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          17 GVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHc
Confidence            3999999999999999888876

>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=89.42  E-value=0.072  Score=43.90  Aligned_cols=22  Identities=23%  Similarity=0.427  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .++|.|++|+|||+++..+.+.
T Consensus        17 gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc
Confidence            3999999999999999888764

>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=89.39  E-value=0.08  Score=43.42  Aligned_cols=21  Identities=19%  Similarity=0.417  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|+||+||||++.++..+
T Consensus         3 I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           3 IIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999753

>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=89.32  E-value=0.045  Score=47.19  Aligned_cols=25  Identities=12%  Similarity=0.014  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      -+.|.|+.|+||||+++.+++.+..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~l~~   28 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQLCED   28 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhc
Confidence            3889999999999999999998743

>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=89.20  E-value=0.072  Score=45.89  Aligned_cols=22  Identities=32%  Similarity=0.486  Sum_probs=20.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.++.-+
T Consensus        29 ~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          29 FVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCc
Confidence            8999999999999999999854

>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=89.19  E-value=0.13  Score=43.77  Aligned_cols=25  Identities=28%  Similarity=0.215  Sum_probs=22.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         68 HFLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      -+.|.|+.|+||||.++.+++.+..
T Consensus         5 ~I~iEG~DGsGKST~~~~L~~~L~~   29 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILYKKLQP   29 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHh
Confidence            3899999999999999999998854

>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=89.16  E-value=0.11  Score=42.38  Aligned_cols=21  Identities=19%  Similarity=0.290  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      ++|.|.+|+|||++++.+...
T Consensus         6 v~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988753

>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=88.97  E-value=0.1  Score=43.04  Aligned_cols=22  Identities=18%  Similarity=0.327  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.|.+|+|||++++.+.+.-
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            8999999999999999988753

>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=88.90  E-value=0.38  Score=38.47  Aligned_cols=42  Identities=12%  Similarity=0.128  Sum_probs=29.6

Q ss_pred             CcEEEEEcCCCCccHH---HHHHHHHHHHhccCcceEEEEecCcc
Q psy12150        137 PFKIVILDEADSMTHA---AQAALRRTMEKETKSTRFCLICNYVS  178 (456)
Q Consensus       137 ~~~iviIDE~d~l~~~---~~~~Ll~~le~~~~~~~lIl~~~~~~  178 (456)
                      .+.+||+||+-..-.-   ..+.++..+++.|..+-+|++.++.+
T Consensus        94 ~~dllILDEi~~Ai~~gli~~~~v~~ll~~rp~~~evVlTGr~~p  138 (157)
T d1g5ta_          94 LLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCH  138 (157)
T ss_dssp             TCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCC
T ss_pred             ccCEEeHHHHHHHHHcCCCCHHHHHHHHHhCCCCCEEEEECCCCC
Confidence            5679999997432211   13567788888888888999987543

>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=88.90  E-value=0.073  Score=45.49  Aligned_cols=44  Identities=36%  Similarity=0.589  Sum_probs=33.3

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcC---CCCcccccchhcccC
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKG---GEGIVNEDVLEVTGV  363 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~---~~~~~~~~~~~~~g~  363 (456)
                      ++++.+.+.+.||+|+++|.||.+.....   ...|+.+.|++++|.
T Consensus       181 ~~l~~i~~~s~Gd~R~ain~Lq~~~~~~~~~~~~~It~~~v~e~~g~  227 (227)
T d1sxjc2         181 NAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGA  227 (227)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCcHHHHHHHHHHHHHhcCCCCCCeeCHHHHHHHhCc
Confidence            34677788899999999999998865422   235777778888874

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {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: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=88.89  E-value=0.24  Score=50.03  Aligned_cols=61  Identities=16%  Similarity=0.233  Sum_probs=42.9

Q ss_pred             CCCcchhccCCCCcccccccHHHH--HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         31 KPVPWVEKYRPKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        31 ~~~~w~eky~P~~~~~ivg~~~~~--~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+.-+++.|+.+...++.-+--.+  ...+..+..++...++++|++|+|||..++.+.+.+.
T Consensus        88 y~~~~~~~y~~~~~~~~~PHifaiA~~Ay~~m~~~~~nQsIiisGeSGaGKTe~~k~il~yL~  150 (712)
T d1d0xa2          88 YTQEMVDIFKGRRRNEVAPHIFAISDVAYRSMLDDRQNQSLLITGESGAGKTENTKKVIQYLA  150 (712)
T ss_dssp             CSHHHHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHcCCCcCCCCCcHHHHHHHHHHHHHHhCCCceEEEeCCCCCCHHHHHHHHHHHHH
Confidence            344567788776666655443333  3345556666655699999999999999999988763

>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=88.65  E-value=1.2  Score=35.93  Aligned_cols=21  Identities=19%  Similarity=0.246  Sum_probs=19.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      ++-+.|.|++||||+++++.+
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            388999999999999999974

>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=88.62  E-value=0.11  Score=43.08  Aligned_cols=22  Identities=23%  Similarity=0.295  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||+++.++...-
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999988753

>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=88.62  E-value=0.12  Score=42.48  Aligned_cols=20  Identities=30%  Similarity=0.429  Sum_probs=18.2

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +++.|++|+|||++++.+..
T Consensus        20 I~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          20 ILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEETTSSHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            99999999999999998753

>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=88.52  E-value=0.11  Score=45.41  Aligned_cols=22  Identities=23%  Similarity=0.380  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.|.||.|+||||+++.+..-+
T Consensus        43 vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          43 TALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhccc
Confidence            8999999999999999998754

>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=88.47  E-value=0.13  Score=43.41  Aligned_cols=20  Identities=25%  Similarity=0.331  Sum_probs=17.5

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +-|+|++|+||||+++.+.+
T Consensus         6 IgitG~igSGKStv~~~l~~   25 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFAD   25 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCcCCHHHHHHHHHH
Confidence            56899999999999998764

>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=88.30  E-value=0.11  Score=46.33  Aligned_cols=23  Identities=30%  Similarity=0.443  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhc
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.|.||.|+||||+++.++..+.
T Consensus        65 vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          65 LAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCChHHHHHHHHhCCCc
Confidence            89999999999999999987653

>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=88.26  E-value=0.16  Score=42.70  Aligned_cols=29  Identities=24%  Similarity=0.308  Sum_probs=24.4

Q ss_pred             eEEEECC-CCCcHHHHHHHHHHHhcCCccc
Q psy12150         68 HFLFYGP-PGTGKTSTMIAACHQLFGDMYR   96 (456)
Q Consensus        68 ~~Ll~G~-~G~GKT~~a~~l~~~l~~~~~~   96 (456)
                      .|+++|. +|+|||+++-.++..+.....+
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aLa~~G~r   32 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAAKAAGYR   32 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHHTTCC
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHHHCCCe
Confidence            4899999 5999999999999998765543

>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=88.17  E-value=0.27  Score=43.09  Aligned_cols=48  Identities=17%  Similarity=0.202  Sum_probs=33.0

Q ss_pred             HHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         56 VLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        56 ~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      .+..-+..+...-++++|.-|+||||++-.++..+.....  .++-+++.
T Consensus        10 ~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~--rVllvD~D   57 (279)
T d1ihua2          10 ALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGF--DVHLTTSD   57 (279)
T ss_dssp             HHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEESC
T ss_pred             HHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCC--cEEEEeCC
Confidence            3444555444334899999999999999999888765444  45555554

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

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: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=88.09  E-value=0.34  Score=49.03  Aligned_cols=61  Identities=16%  Similarity=0.162  Sum_probs=43.9

Q ss_pred             CCCCcchhccCCCCcccccccHHHH--HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         30 NKPVPWVEKYRPKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        30 ~~~~~w~eky~P~~~~~ivg~~~~~--~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      -.+.-++.+|+-+...++.-+--.+  ......+..++...+++.|++|+|||..++.+.+.+
T Consensus        56 ~y~~~~~~~y~~~~~~~~~PHif~vA~~Ay~~l~~~~~~Q~IiisGeSGsGKTe~~k~il~~l  118 (730)
T d1w7ja2          56 IYGEDIINAYSGQNMGDMDPHIFAVAEEAYKQMARDERNQSIIVSGESGAGKTVSAKYAMRYF  118 (730)
T ss_dssp             CCSHHHHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHcCCCcCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4456678888777666655443332  344555666666669999999999999999998876

>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=87.80  E-value=0.56  Score=41.06  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=20.6

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.+.|..|+||||++.++....
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            468899999999999999997543

>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)62
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=87.74  E-value=0.83  Score=30.72  Aligned_cols=58  Identities=14%  Similarity=0.076  Sum_probs=47.5

Q ss_pred             HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy12150        204 RLQYICEQESV-MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (456)
Q Consensus       204 ~l~~~~~~~~~-~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~  261 (456)
                      -++.++..-|+ .+++++...|++-..--++++++..-+...-+.+...|.+||..++.
T Consensus        11 sik~iAeS~Gi~~l~de~a~~LA~DveYRl~eiiQeA~KFMrhskR~~Ltt~Did~ALk   69 (70)
T d1tafb_          11 SMKVIAESIGVGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK   69 (70)
T ss_dssp             HHHHHHHHTTCCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred             HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcCcHHHHHHHHc
Confidence            34566777888 59999999999988888888888888877766788999999987763

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

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: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=87.63  E-value=0.41  Score=48.24  Aligned_cols=62  Identities=16%  Similarity=0.208  Sum_probs=43.4

Q ss_pred             CCCCcchhccCCCCcccccccHHHH--HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         30 NKPVPWVEKYRPKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        30 ~~~~~w~eky~P~~~~~ivg~~~~~--~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      -.+.-+++.|+-+...++.-+--.+  ...+..+..++...+++.|++|+|||..++.+.+.+.
T Consensus        53 ~y~~~~~~~y~~~~~~~~~PHif~vA~~Ay~~m~~~~~~Q~IiisGeSGaGKTe~~k~il~yL~  116 (710)
T d1br2a2          53 IYSEKIIDMYKGKKRHEMPPHIYAIADTAYRSMLQDREDQSILCTGESGAGKTENTKKVIQYLA  116 (710)
T ss_dssp             TCCHHHHHHTTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHcCCCCCCCCChHHHHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            3444567788776666655443333  3345556666656699999999999999999988764

>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=87.57  E-value=0.11  Score=42.46  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=19.4

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +.+.|.|.||+||||+++++..
T Consensus         2 ~~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           2 ADVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4588999999999999999864

>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=87.42  E-value=0.13  Score=45.16  Aligned_cols=21  Identities=19%  Similarity=0.349  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +-|.||.|+||||++++++.-
T Consensus        31 ~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          31 ISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCcHHHHHHHHHcC
Confidence            899999999999999999864

>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=87.39  E-value=0.14  Score=41.64  Aligned_cols=21  Identities=24%  Similarity=0.368  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.|.|.+|+||||+++++.+.
T Consensus         8 I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            889999999999999999853

>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=87.24  E-value=0.13  Score=42.16  Aligned_cols=22  Identities=18%  Similarity=0.315  Sum_probs=19.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +.+-|.|+|++||||+++++..
T Consensus         2 ~~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           2 ADVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEE
T ss_pred             CeEEEECCCCCCHHHHHHHHhC
Confidence            3588999999999999998754

>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H4
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=87.23  E-value=0.33  Score=34.18  Aligned_cols=59  Identities=8%  Similarity=-0.054  Sum_probs=48.3

Q ss_pred             HHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhCCC
Q psy12150        205 LQYICEQESVM-CDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVI  263 (456)
Q Consensus       205 l~~~~~~~~~~-i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~~~  263 (456)
                      ++.+++..|+. +++++.+.|.....--++++++.....+..++.++|+.+||..++.+.
T Consensus        15 i~Riar~~Gv~ris~d~~~~l~~~l~~~l~~i~~~a~~~~~hakRKTvt~~DV~~Alkr~   74 (82)
T d2huec1          15 IRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQ   74 (82)
T ss_dssp             HHHHHHHTTCCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTTTT
T ss_pred             HHHHHHHcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHhc
Confidence            34555666765 999999999998877888888888888888889999999999888654

>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=87.06  E-value=0.18  Score=43.35  Aligned_cols=22  Identities=18%  Similarity=0.208  Sum_probs=20.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +-|+|+.||||||+++.+++.+
T Consensus         4 IgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            6799999999999999998864

>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=86.99  E-value=0.16  Score=43.64  Aligned_cols=34  Identities=32%  Similarity=0.293  Sum_probs=22.7

Q ss_pred             HHHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHh
Q psy12150         54 VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        54 ~~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ...+...+++.   ++++.+|+|+|||.++...+-..
T Consensus        49 ~~~i~~~l~g~---~~~i~apTGsGKT~~~~~~~~~~   82 (237)
T d1gkub1          49 KMWAKRILRKE---SFAATAPTGVGKTSFGLAMSLFL   82 (237)
T ss_dssp             HHHHHHHHTTC---CEECCCCBTSCSHHHHHHHHHHH
T ss_pred             HHHHHHHHCCC---CEEEEecCCChHHHHHHHHHHHH
Confidence            34445555432   58999999999998766554433

>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=86.91  E-value=0.11  Score=44.45  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=21.2

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      .|-++|+|.-|+||||+++.+.+.
T Consensus         3 iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           3 IAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCEEEEeeCCCCCHHHHHHHHHhc
Confidence            344899999999999999999886

>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=86.77  E-value=0.16  Score=42.77  Aligned_cols=20  Identities=25%  Similarity=0.209  Sum_probs=17.2

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +-|+|+.|+||||+++.+.+
T Consensus         5 IgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            45899999999999998753

>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=86.65  E-value=0.23  Score=43.83  Aligned_cols=35  Identities=31%  Similarity=0.414  Sum_probs=26.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      ++++|.-|+||||++-+++..+.....  .+.-+++.
T Consensus        11 i~~sGKGGVGKTTvaa~lA~~lA~~G~--rVLlvD~D   45 (296)
T d1ihua1          11 LFFTGKGGVGKTSISCATAIRLAEQGK--RVLLVSTD   45 (296)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEECC
T ss_pred             EEEECCCcChHHHHHHHHHHHHHHCCC--CEEEEeCC
Confidence            899999999999999999988865544  34444443

>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=86.62  E-value=0.067  Score=44.30  Aligned_cols=25  Identities=36%  Similarity=0.460  Sum_probs=22.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      .+|+||.|+|||+++.++.-.+.+.
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~g~   51 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALIPD   51 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHSCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Confidence            5889999999999999999887654

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

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: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=86.19  E-value=0.5  Score=48.22  Aligned_cols=60  Identities=18%  Similarity=0.176  Sum_probs=41.3

Q ss_pred             CCcchhccCCCCcccccccHHHH--HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~--~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.--++.|+-+...++.-+--.+  ......+..++...++++|++|+|||..++.+.+.+.
T Consensus        87 ~~~~~~~y~~~~~~~~pPHifaiA~~Ay~~m~~~~~~QsIiisGeSGaGKTe~~K~il~yL~  148 (794)
T d2mysa2          87 NPKVVLAYRGKKRQEAPPHIFSISDNAYQFMLTDRENQSILITGESGAGKTVNTKRVIQYFA  148 (794)
T ss_dssp             CTTHHHHTTTCCTTSSCSCHHHHHHHHHHHHHHHTCCEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHcCCCCCCCCCcHHHHHHHHHHHHHHcCCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            34445667666555554443333  3455566666666699999999999999999888763

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), 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 Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=86.17  E-value=3.6  Score=33.84  Aligned_cols=22  Identities=23%  Similarity=0.051  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +.+.|-+++||||++.++....
T Consensus         6 i~iiGhvd~GKSTL~~~Ll~~~   27 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALTYVA   27 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHHh
Confidence            8899999999999999997553

>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=86.03  E-value=0.19  Score=41.50  Aligned_cols=20  Identities=20%  Similarity=0.365  Sum_probs=18.1

Q ss_pred             eEEEECCCCCcHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAAC   87 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~   87 (456)
                      .+++.|.+|+|||+++..+.
T Consensus         4 KivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            38999999999999999983

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

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: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=85.98  E-value=0.41  Score=48.81  Aligned_cols=60  Identities=20%  Similarity=0.235  Sum_probs=42.1

Q ss_pred             CCcchhccCCCCcccccccHHHH--HHHHHHHhcCCCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         32 PVPWVEKYRPKTIDDVIEQQEVV--SVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        32 ~~~w~eky~P~~~~~ivg~~~~~--~~l~~~l~~~~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      +.-.+++|+.+...++.-+--.+  ......+..++...++++|++|+|||..++.+.+.+.
T Consensus        85 ~~~~~~~y~~~~~~~~~PHiyavA~~Ay~~m~~~~~nQ~IiisGESGaGKTe~~K~il~yL~  146 (789)
T d1kk8a2          85 TDSVIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLA  146 (789)
T ss_dssp             SHHHHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTSEEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CHHHHHHHcCCCCCCCCCcHHHHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            34456777766666654443333  4455666666655599999999999999999988764

>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=85.76  E-value=0.24  Score=40.42  Aligned_cols=22  Identities=18%  Similarity=0.140  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|++|+|||+++..+...-
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999888753

>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=85.74  E-value=0.22  Score=40.73  Aligned_cols=21  Identities=24%  Similarity=0.407  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.|.|.+|+||||++.++...
T Consensus        11 V~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          11 VAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
Confidence            889999999999999998753

>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=85.48  E-value=0.12  Score=42.02  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=19.1

Q ss_pred             CeEEEECCCCCcHHHHHHHHHH
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +.+.|.|.|++|||++.+++..
T Consensus        17 ~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          17 IEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4499999999999999988754

>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=85.17  E-value=0.43  Score=42.03  Aligned_cols=26  Identities=19%  Similarity=-0.037  Sum_probs=22.2

Q ss_pred             CCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         66 LPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        66 ~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      .+|+.+.|..|+||||++.++.....
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            45789999999999999999986543

>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=85.13  E-value=0.5  Score=39.97  Aligned_cols=21  Identities=19%  Similarity=0.300  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +++.|.+|+|||++++.+...
T Consensus         9 illlG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            899999999999999998654

>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=84.63  E-value=0.23  Score=46.70  Aligned_cols=37  Identities=22%  Similarity=0.276  Sum_probs=27.0

Q ss_pred             CeEEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeCC
Q psy12150         67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNAS  105 (456)
Q Consensus        67 ~~~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~~  105 (456)
                      .|+++.|++|+|||+++..+..++.....  .++-+|..
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~~~~g~--~~iiiD~k   87 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTGLLRGD--RMVIVDPN   87 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHTTC--EEEEEEET
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHHHhCCC--CEEEEeCC
Confidence            46999999999999999877766544322  45556654

>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=84.61  E-value=0.08  Score=42.31  Aligned_cols=21  Identities=19%  Similarity=0.452  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQ   89 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~   89 (456)
                      +.|.|.||+||||+++++...
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            689999999999999999865

>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=84.33  E-value=0.25  Score=40.55  Aligned_cols=22  Identities=18%  Similarity=0.240  Sum_probs=19.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|..|+|||++++.+...-
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7999999999999999997654

>d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]}

class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanothermus fervidus, histone A [TaxId: 2180]

Probab=83.92  E-value=1.5  Score=29.20  Aligned_cols=63  Identities=13%  Similarity=-0.029  Sum_probs=48.5

Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhCCCCCCHHHHHHHhC
Q psy12150        196 LAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG  261 (456)
Q Consensus       196 ~~~~el~~~l~~~~~~~~~~i~~~~l~~L~~~s~gdlr~~~~~L~~~~~~~~~~~It~~~v~~~~~  261 (456)
                      ++..-+..+++.-   ....++.++...+.+.+.-.+..+.......+...+.++|+.+||..++.
T Consensus         4 LP~a~I~ri~k~~---~~~ris~ea~~~l~~~~e~fi~~l~~~a~~~a~~~kRkTi~~~DV~~Alk   66 (68)
T d1htaa_           4 LPIAPIGRIIKNA---GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARK   66 (68)
T ss_dssp             SCHHHHHHHHHHT---TCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             CcHHHHHHHHHHC---CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHH
Confidence            4445555555432   23469999999999998888888888888888877899999999988764

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.71  E-value=1.3  Score=40.04  Aligned_cols=27  Identities=7%  Similarity=0.051  Sum_probs=22.7

Q ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHhc
Q psy12150         65 DLPHFLFYGPPGTGKTSTMIAACHQLF   91 (456)
Q Consensus        65 ~~~~~Ll~G~~G~GKT~~a~~l~~~l~   91 (456)
                      ..+++.+.|..|.||||++.++....+
T Consensus        16 ~IRNI~iiGhvd~GKTTL~d~Ll~~~g   42 (341)
T d1n0ua2          16 NVRNMSVIAHVDHGKSTLTDSLVQRAG   42 (341)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHB
T ss_pred             cCcEEEEEeCCCCcHHHHHHHHHHHCC
Confidence            345799999999999999999986543

>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=83.61  E-value=0.24  Score=42.52  Aligned_cols=20  Identities=25%  Similarity=0.547  Sum_probs=18.8

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q psy12150         69 FLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      +-|.||.|+||||+.+.++.
T Consensus        28 ~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          28 LHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EECBCCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHhC
Confidence            88999999999999999887

>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=83.58  E-value=0.28  Score=44.56  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=22.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFG   92 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~   92 (456)
                      +.|-|+-|+||||+++.+++.+..
T Consensus         9 I~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           9 IYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEECCccCCHHHHHHHHHHHhcc
Confidence            899999999999999999998754

>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=83.15  E-value=0.19  Score=42.88  Aligned_cols=39  Identities=41%  Similarity=0.624  Sum_probs=30.0

Q ss_pred             HHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcc
Q psy12150        321 ALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT  361 (456)
Q Consensus       321 ~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~  361 (456)
                      +++.+.+.+.||+|+++|.||.++..  +..++.++|+++.
T Consensus       192 ~l~~I~~~~~gdiR~ai~~Lq~~~~~--~~~it~e~v~~v~  230 (231)
T d1iqpa2         192 GLQAILYIAEGDMRRAINILQAAAAL--DKKITDENVFMVA  230 (231)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTT--CSEECHHHHHHHT
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHc--CCCcCHHHHHhhh
Confidence            45667778899999999999988764  3467777777653

>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=82.83  E-value=0.25  Score=44.91  Aligned_cols=25  Identities=24%  Similarity=0.263  Sum_probs=22.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGD   93 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~   93 (456)
                      +.|-|+-|+||||+++.+++.+...
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~~   32 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAIT   32 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTTS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhc
Confidence            7899999999999999999987653

>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=82.53  E-value=0.38  Score=39.21  Aligned_cols=22  Identities=18%  Similarity=0.244  Sum_probs=19.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      +++.|..|+|||++++.+...-
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            7999999999999999987653

>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=81.93  E-value=0.24  Score=42.01  Aligned_cols=40  Identities=35%  Similarity=0.521  Sum_probs=29.1

Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhhhhhcCCCCcccccchhcc
Q psy12150        320 KALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVT  361 (456)
Q Consensus       320 ~~~~~~~~~~~gd~r~~~~~lq~~~~~~~~~~~~~~~~~~~~  361 (456)
                      +++..+.+.+.||+|++++.||.++...+  .++.+.|++++
T Consensus       183 ~~l~~I~~~s~Gd~R~ai~~Lq~~~~~~~--~i~~~~i~~~~  222 (224)
T d1sxjb2         183 DGLEAIIFTAEGDMRQAINNLQSTVAGHG--LVNADNVFKIV  222 (224)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHS--SBCHHHHHHHH
T ss_pred             HHHHHHHHHcCCcHHHHHHHHHHHHHcCC--CcCHHHHHHHh
Confidence            34677788899999999999998875432  45555565544

>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=81.91  E-value=0.36  Score=43.82  Aligned_cols=26  Identities=31%  Similarity=0.471  Sum_probs=19.6

Q ss_pred             HHHhcCCCCeEEEECCCCCcHHHHHH
Q psy12150         59 KCLSGADLPHFLFYGPPGTGKTSTMI   84 (456)
Q Consensus        59 ~~l~~~~~~~~Ll~G~~G~GKT~~a~   84 (456)
                      ..+.+|....++.||..|+|||+++.
T Consensus        78 ~~~~~G~n~~i~aYGqTGSGKTyTm~  103 (330)
T d1ry6a_          78 DLYENGCVCSCFAYGQTGSGKTYTML  103 (330)
T ss_dssp             HHHHHCCEEEEEEECCTTSSHHHHHH
T ss_pred             HHHhcCCCeEEEeeeccccccceeee
Confidence            44545554449999999999999863

>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=81.33  E-value=0.6  Score=40.57  Aligned_cols=36  Identities=19%  Similarity=0.224  Sum_probs=28.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccccceEEeeC
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNA  104 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l~~~~~~~~~~e~n~  104 (456)
                      +.|+|.-|+||||++-.++..+.....+.-++..|.
T Consensus         4 Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D~   39 (269)
T d1cp2a_           4 VAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDP   39 (269)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECT
T ss_pred             EEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            567999999999999999999877655444555543

>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=80.99  E-value=0.37  Score=45.01  Aligned_cols=21  Identities=24%  Similarity=0.309  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q psy12150         68 HFLFYGPPGTGKTSTMIAACH   88 (456)
Q Consensus        68 ~~Ll~G~~G~GKT~~a~~l~~   88 (456)
                      ++.+.|.||+||||+++++..
T Consensus        58 ~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          58 NVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            499999999999999999974

>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=80.29  E-value=2  Score=37.51  Aligned_cols=22  Identities=27%  Similarity=0.235  Sum_probs=18.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHh
Q psy12150         69 FLFYGPPGTGKTSTMIAACHQL   90 (456)
Q Consensus        69 ~Ll~G~~G~GKT~~a~~l~~~l   90 (456)
                      ++|.|++|+|||+++..+....
T Consensus        70 ~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          70 ELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             CBEEESSSSSHHHHHHHHHHTC
T ss_pred             EeeccCCCCChHHHHHHHHhhh
Confidence            7899999999999988765543